supported organisms gene information infer operonsget orthologs random gene selection

retrieve sequence retrieve EnsEMBL seq fetch-sequences from UCSC sequences from bed/gff/vcf purge sequence convert sequences random sequences

retrieve matrix convert matrix compare matrices matrix-clustering matrix distrib matrix quality

random gene selection random sequences random genome fragments random-motif permute-matrix random-sites implant-sites

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

matrices matrix-scan
(full options) matrix-scan (quick) crer-scan strings dna-pattern genome-scale dna-pattern

get orthologs get orthologs-compara footprint-discovery footprint-scan

peak-motifs fetch-sequences from UCSC sequences from bed/gff/vcf random genome fragments

Variation information Retrieve variation sequences Scan variations with motifs Convert variation formats

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

feature map feature map 2 XY graph

Programmatic interface to RSAT WSDL Documentation