rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99


rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_third_matrices.transfac -from transfac -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_homer_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_homer_input_motifs_processed_1.tf -from tf -to transfac -prefix_id oct4_homer -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_homer_input_motifs_processed.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_second_matrices. -from transfac -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_meme-chip_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_meme-chip_input_motifs_processed_1.tf -from tf -to transfac -prefix_id oct4_meme-chip -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_meme-chip_input_motifs_processed.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_query_matrices.meme -from meme -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_peak_motifs_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_peak_motifs_input_motifs_processed_1.tf -from tf -to transfac -prefix_id oct4_peak_motifs -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_peak_motifs_input_motifs_processed.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_homer_input_motifs_processed.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_meme-chip_input_motifs_processed.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/oct4_peak_motifs_input_motifs_processed.tf  > /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/motif


 cat /var/www/html/rsat/R-scripts/matrix-clustering.R | /usr/bin/R --slave --no-save --no-restore --no-environ --args " infile = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/alignment_table.tab'; verbosity = 0; metric = 'Ncor'; heatmap.color.palette = 'YlOrRd'; heatmap.color.classes = '9'; export.newick = 0; radial.only = 0; draw.heatmap = 1; draw.consensus = 0; pos.hclust.in.heatmap = 'column'; lthsp = 'Ncor_0.4_cor_0.6_'; out.prefix = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering'; "


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_1_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_2_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_3_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_4_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_5_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_6_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_7_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_8_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_9_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_10_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_11_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_12_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_data/cluster_13_transfac_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m5_homer_5_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m8_homer_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m13_MEME_ChIP_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m14_MEME_ChIP_14_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf -from tf -to tf  -attr name cluster_10 -attr accession cluster_10 -set_attr merged_AC 'oct4_homer:::homer_5' -set_attr merged_ID 'homer_5' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf -from tf -to tf  -attr name cluster_11 -attr accession cluster_11 -set_attr merged_AC 'oct4_homer:::homer_8' -set_attr merged_ID 'homer_8' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222152_s3VzkM


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222152_Qcmpl5


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222152_ixhJP6


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m7_homer_7_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m6_MEME_ChIP_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m10_MEME_ChIP_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m25_MEME_ChIP_25_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m20_MEME_ChIP_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m15_MEME_ChIP_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m20_MEME_ChIP_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf -from tf -to tf  -attr name cluster_12 -attr accession cluster_12 -set_attr merged_AC 'oct4_homer:::homer_7' -set_attr merged_ID 'homer_7' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf -from tf -to tf  -attr name cluster_13 -attr accession cluster_13 -set_attr merged_AC 'oct4_meme-chip:::MEME_ChIP_6' -set_attr merged_ID 'MEME_ChIP_6' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222153_gf4xPl


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222153_KX1uuz


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222153_KUbmev


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m16_homer_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m18_homer_18_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m1_homer_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m10_MEME_ChIP_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m25_MEME_ChIP_25_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m19_homer_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m5_MEME_ChIP_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m6_homer_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m16_homer_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m18_homer_18_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m4_homer_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m19_homer_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m5_MEME_ChIP_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_2/cluster_3_node_2_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m22_MEME_ChIP_22_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m6_homer_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m16_homer_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m18_homer_18_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m9_homer_9_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m4_homer_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m19_homer_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m5_MEME_ChIP_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_3/cluster_3_node_3_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_3 -name cluster_3 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_2/cluster_3_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_3 -name cluster_3 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_2/cluster_3_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_3/cluster_3_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_3 -name cluster_3 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_3/cluster_3_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_mZYmiq


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_TKmvGg


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_4eP4jb


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_w1bFEv


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_2/cluster_3_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_MWjMlU


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_iSAJjj


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_sNrUOd


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_3/cluster_3_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_HAYTJK


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222154_t55tN9


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_2/cluster_3_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_3/cluster_3_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_nb_motifs_5.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222155_wWO64s


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222155_XG92Uq


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m2_MEME_ChIP_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m9_MEME_ChIP_9_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m8_MEME_ChIP_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m2_MEME_ChIP_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m9_MEME_ChIP_9_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_4 -name cluster_4 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m1_MEME_ChIP_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m15_MEME_ChIP_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m20_MEME_ChIP_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m12_homer_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m8_MEME_ChIP_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m2_MEME_ChIP_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m9_MEME_ChIP_9_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_3/cluster_4_node_3_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_4 -name cluster_4 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m13_MEME_ChIP_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m14_MEME_ChIP_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_3/cluster_4_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_4 -name cluster_4 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_3/cluster_4_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222156_GH04Ho


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222156_MWYxdr


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_nb_motifs_5.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222156_qx3Gcb


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_3/cluster_4_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222156_j5X1KP


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_nb_motifs_7.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222156_feXvFG


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_nb_motifs_9.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222156_j4zKD2


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_3/cluster_4_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m15_homer_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m3_homer_3_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_5 -name cluster_5 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m13_homer_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m13_MEME_ChIP_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m14_MEME_ChIP_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m1_MEME_ChIP_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m15_MEME_ChIP_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m20_MEME_ChIP_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m13_homer_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m13_MEME_ChIP_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m14_MEME_ChIP_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m1_homer_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m10_MEME_ChIP_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m25_MEME_ChIP_25_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m1_MEME_ChIP_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m15_MEME_ChIP_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m20_MEME_ChIP_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m13_homer_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m13_MEME_ChIP_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m14_MEME_ChIP_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_17/cluster_1_node_17_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_17/cluster_1_node_17_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_17/cluster_1_node_17_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222157_Uc9meP


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_nb_motifs_10.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222157_SspJ8F


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_nb_motifs_15.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222157_OTM3QQ


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_17/cluster_1_nb_motifs_18.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222157_rCRdmp


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_17/cluster_1_node_17_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m4_MEME_ChIP_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m7_MEME_ChIP_7_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_6 -name cluster_6 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m3_MEME_ChIP_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m1_homer_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m10_MEME_ChIP_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m25_MEME_ChIP_25_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m1_MEME_ChIP_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m15_MEME_ChIP_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m20_MEME_ChIP_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m21_MEME_ChIP_21_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m24_MEME_ChIP_24_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m13_homer_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m13_MEME_ChIP_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m14_MEME_ChIP_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m11_MEME_ChIP_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m12_MEME_ChIP_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m17_MEME_ChIP_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m16_MEME_ChIP_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m18_MEME_ChIP_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m19_MEME_ChIP_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m23_MEME_ChIP_23_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_18/cluster_1_node_18_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_18/cluster_1_node_18_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_18/cluster_1_node_18_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222159_nMzAfs


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_18/cluster_1_nb_motifs_19.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222159_0q8VRu


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_18/cluster_1_node_18_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m11_homer_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m2_homer_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_7 -name cluster_7 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222200_BBaPGd


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m14_homer_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m4_MEME_ChIP_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_meme-chip_m7_MEME_ChIP_7_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_2/cluster_6_node_2_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_2/cluster_6_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_6 -name cluster_6 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_2/cluster_6_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_2/cluster_6_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/IC_test_2025-03-04.222201_1X4mL0


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_2/cluster_6_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m10_homer_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices_temp.tf -from tf -to tf  -attr name cluster_8 -attr accession cluster_8 -set_attr merged_AC 'oct4_homer:::homer_10' -set_attr merged_ID 'homer_10' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/oct4_homer_m17_homer_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices_temp.tf -from tf -to tf  -attr name cluster_9 -attr accession cluster_9 -set_attr merged_AC 'oct4_homer:::homer_17' -set_attr merged_ID 'homer_17' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


rm -r /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_pairwise_compa_logos


cp /var/www/html/rsat/public_html/templates_html/display_d3_tree.html /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_logo_tree.html


cp /var/www/html/rsat/public_html/templates_html/display_small_d3_tree.html /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_portable_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_portable_logo_tree.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_html/pairwise_compa_matrix_descriptions.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/distance_table.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/alignment_table.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters_motif_names.html


mv -f /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_portable_logo_tree.html


 cat /var/www/html/rsat/R-scripts/heatmap_clusters_by_collection.R | /usr/bin/R --slave --no-save --no-restore --no-environ --args " cluster.counts.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters_summary_table.tab'; heatmap.table.d3 = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/collection_heatmap_tab.tsv'; attributes.list.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/collection_heatmap_order.tab'; percent.table.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters_summary_percent_table.tab'; coverage.table.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/clusters_summary_coverage_contingency_table.tab'; motif.richness.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_motif_richness.tsv'; coverage.table.d3 = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/convergency_heatmap_tab.tsv'; coverage.heatmap.attributes.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_tables/convergency_heatmap_attributes.tab'; coverage.json.folder = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_coverage_json'; heatmap.color.palette = 'YlOrRd'; heatmap.color.classes = '9'; root.motifs.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/03/04/matrix-clustering_2025-03-04.222138_i1gU99/matrix-clustering_root_motifs_table.tab'; "