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Genomes and genes
Sequence tools
retrieve sequence
retrieve EnsEMBL seq fetch-sequences from UCSC
sequences from bed/gff/vcf
purge sequence
convert sequences
random sequences
Matrix tools
Build control sets
Motif discovery
strings
oligo-analysis (words)
oligo-diff (words)
dyad-analysis (spaced pairs)
pattern assembly
strings with positional biais
position-analysis (words)
local-word-analysis (word and spaced pairs)
matrices
info-gibbs
Pattern matching
Comparative genomics
NGS - ChIP-seq
Genetic variations (Var-tools)
Conversion/Utilities
Set comparisons / enrichment
Stats
Frequency distribution
sequences
convert sequences
matrices
convert matrix / logo
background models
create background
convert background
sequence probability
features
convert features
compare features
networks
network interactions
Drawing
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