Sites Motifs Analysis

Count motives for SQL track + HOCOMOCO track

Sequences collection – Select a source of nucleotide sequences
- Sequences source – Select database to get sequences from or 'Custom' to specify sequences location manually
- Sequence collection – Specify path to folder containing sequences if 'Custom' sequences source is selected
Site name – Name of predicted sites
Path to track – Path to track with ChIP-Seq dataset
Use HOCOMOCO track – Choose HOCOMOCO track or use HOCOMOCO model for creating new HOCOMOCO track
output table name – write output table name
Record result to GTRD database – Record result to GTRD database
write new table – record new table to GTRD database
write data to existed table – record data to existed table in GTRD database
nameOfExistedTable – nameOfExistedTable
Number of thread – write number of threads (not more than 20)
onlyTrackl – onlyTrackl
Use only one model – Use only one HOCOMOCO model
Count cover of motifs – choose this one, if you need to count cover of motifs in sites
Use mouse matrix – Use mouse HOCOMOCO matrix
miniml site size – Choose miniml site's size
model name – write name of your model
Track's names in folder – Track's names in folder
modelPath – modelPath
Path to output folder – Path to output folder