show motifs in GBrowse

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show motifs in GBrowse

Postby ABQ » Wed Mar 13, 2013 7:15 pm

I would like to have some short DNA motif/sequences (at my wish) be graphically shown in the GBrowse, in a separate track. Well, it can be similar to the BLAST hit track, only my motifs are too short to go though the BLAST. I need this feature to visually estimate the frequency and location of given short motifs. Any idea how to make it happen?
Many thanks!
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Joined: Wed Jan 25, 2012 4:49 pm

Re: show motifs in GBrowse

Postby Josh Goodman » Wed Mar 13, 2013 9:13 pm

I recommend you take a look at GBrowse 2.x that we just installed on Friday. It has better support for custom tracks and should let you do what you describe.

See the tab labeled "Custom tracks".

Josh Goodman
Site Admin
Posts: 66
Joined: Mon Nov 26, 2007 2:39 pm

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