

rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh


rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_query_matrices.homer -from homer -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/wt_top1_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/wt_top1_input_motifs_processed_1.tf -from tf -to transfac -prefix_id wt_top1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/wt_top1_input_motifs_processed.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/wt_top1_input_motifs_processed.tf  > /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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 = 'cor_0.6_Ncor_0.4_'; out.prefix = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering'; "


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_13_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_14_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_14_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_15_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_15_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_16_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_16_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_17_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_17_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_18_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_18_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_19_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_19_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_20_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_20_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_21_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_21_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/cluster_22_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_data/cluster_22_transfac_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m14_homer_14.ACACCCGCAA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m15_homer_15.CTGCCSGCAAGG_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m18_homer_18.AGTCTTGCCC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m31_homer_31.ACGGGCGATA_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m21_homer_21.MAGCCTCAGCAG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m32_homer_32.CASAGSCAGAGS_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_11 -name cluster_11 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_10 -name cluster_10 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.134103_O5uekE


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/IC_test_2025-05-30.134103_Ihmb9p


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.134103_8zwLR3


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m23_homer_23.CACTCACCAGGG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m14_homer_14.ACACCCGCAA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m15_homer_15.CTGCCSGCAAGG_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.134104_V3Aktz


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m12_homer_12.WCSGGACY_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m19_homer_19.ATTAGTCTGA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m24_homer_24.GGACCAMGAT_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_12 -name cluster_12 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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 'wt_top1:::homer_12.WCSGGACY' -set_attr merged_ID 'homer_12.WCSGGACY' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.134105_geRM21


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m27_homer_27.ATAGGGAA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m22_homer_22.TCTAACCTGTTC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m26_homer_26.CTAAGACC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m19_homer_19.ATTAGTCTGA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m24_homer_24.GGACCAMGAT_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf -from tf -to tf  -attr name cluster_14 -attr accession cluster_14 -set_attr merged_AC 'wt_top1:::homer_27.ATAGGGAA' -set_attr merged_ID 'homer_27.ATAGGGAA' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf -from tf -to tf  -attr name cluster_15 -attr accession cluster_15 -set_attr merged_AC 'wt_top1:::homer_22.TCTAACCTGTTC' -set_attr merged_ID 'homer_22.TCTAACCTGTTC' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_12 -name cluster_12 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.134106_Nm3iEg


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m3_homer_3.GGTRGCCKGCTK_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m17_homer_17.AAGCACAGTG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf -from tf -to tf  -attr name cluster_16 -attr accession cluster_16 -set_attr merged_AC 'wt_top1:::homer_3.GGTRGCCKGCTK' -set_attr merged_ID 'homer_3.GGTRGCCKGCTK' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf -from tf -to tf  -attr name cluster_17 -attr accession cluster_17 -set_attr merged_AC 'wt_top1:::homer_17.AAGCACAGTG' -set_attr merged_ID 'homer_17.AAGCACAGTG' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m6_homer_6.ACCRGCKGTC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m8_homer_8.ATCCCGTGTGGG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m7_homer_7.GGGAAGCAGCCT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices_temp.tf -from tf -to tf  -attr name cluster_18 -attr accession cluster_18 -set_attr merged_AC 'wt_top1:::homer_6.ACCRGCKGTC' -set_attr merged_ID 'homer_6.ACCRGCKGTC' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices_temp.tf -from tf -to tf  -attr name cluster_2 -attr accession cluster_2 -set_attr merged_AC 'wt_top1:::homer_7.GGGAAGCAGCCT' -set_attr merged_ID 'homer_7.GGGAAGCAGCCT' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices_temp.tf -from tf -to tf  -attr name cluster_19 -attr accession cluster_19 -set_attr merged_AC 'wt_top1:::homer_8.ATCCCGTGTGGG' -set_attr merged_ID 'homer_8.ATCCCGTGTGGG' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m11_homer_11.GGGCCTGCACTG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m4_homer_4.NGGAAMTTAGKG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m16_homer_16.RCTCGAGTCKVG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_22/cluster_22_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices_temp.tf -from tf -to tf  -attr name cluster_20 -attr accession cluster_20 -set_attr merged_AC 'wt_top1:::homer_11.GGGCCTGCACTG' -set_attr merged_ID 'homer_11.GGGCCTGCACTG' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices_temp.tf -from tf -to tf  -attr name cluster_21 -attr accession cluster_21 -set_attr merged_AC 'wt_top1:::homer_4.NGGAAMTTAGKG' -set_attr merged_ID 'homer_4.NGGAAMTTAGKG' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_22/cluster_22_matrices_temp.tf -from tf -to tf  -attr name cluster_22 -attr accession cluster_22 -set_attr merged_AC 'wt_top1:::homer_16.RCTCGAGTCKVG' -set_attr merged_ID 'homer_16.RCTCGAGTCKVG' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_22/cluster_22_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_22/cluster_22_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m9_homer_9.RGATGGCGDCCG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m28_homer_28.TGCCCCAA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m2_homer_2.TGCGCCAGAT_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m10_homer_10.CCYAANCCAA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m20_homer_20.TCTGGAACGGGC_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices_temp.tf -from tf -to tf  -attr name cluster_3 -attr accession cluster_3 -set_attr merged_AC 'wt_top1:::homer_9.RGATGGCGDCCG' -set_attr merged_ID 'homer_9.RGATGGCGDCCG' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/IC_test_2025-05-30.134110_Lpfrib


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/IC_test_2025-05-30.134110_g7al18


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m29_homer_29.AGAGBGTCRCAG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m30_homer_30.GAGTCGCGGA_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/IC_test_2025-05-30.134111_sOrZS9


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m1_homer_1.GGGCACMTGYCC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m25_homer_25.TGCGGTAC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m5_homer_5.CGCGGAACTT_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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 'wt_top1:::homer_1.GGGCACMTGYCC' -set_attr merged_ID 'homer_1.GGGCACMTGYCC' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/IC_test_2025-05-30.134112_232JRY


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/wt_top1_m13_homer_13.GTGGWCCGSAGA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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 'wt_top1:::homer_13.GTGGWCCGSAGA' -set_attr merged_ID 'homer_13.GTGGWCCGSAGA' -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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


rm -r /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_portable_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/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/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/clusters.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_tables/clusters_motif_names.html


mv -f /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.134052_FDIEgh/matrix-clustering_portable_logo_tree.html
