| This program computes the frequency of motifs in the flanking regions of indels found in a chromosome or a genome. Each indel has an upstream flanking sequence and a downstream flanking one. Each of the upstream and downstream flanking sequences will be divided into a certain number of windows according to the window size input by the user. The frequency of a motif in a certain window in one of the two flanking sequences is the total sum of occurrences of that motif in that window of that flanking sequence over all indels. The indel flanking regions file will be taken from your history or it will be uploaded, whereas the motifs file should be uploaded. |
hg clone https://toolshed.g2.bx.psu.edu/repos/devteam/compute_motifs_frequency
| Name | Description | Version | Minimum Galaxy Version |
|---|---|---|---|
| in indel flanking regions | 1.0.0 | any | |