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Taiji-pipeline / Taiji

All-in-one analysis pipeline
https://taiji-pipeline.github.io/
BSD 3-Clause "New" or "Revised" License
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SwissRegulon Motif File Issue #17

Closed phoebe460 closed 3 years ago

phoebe460 commented 3 years ago

Hi Kai,

So I've been having this issue with reading in my motif file in .meme format generated from the SwissRegulon Motif database. I am not sure where I am getting the "Failed: Unexpected Line" error from? I look through my .meme file and I don't see any "UBL5, 0.1732050807568773 COMBINED_REGULATE".

Taji_SR Error

I've attached my .meme file below. Is there anyway to resolve this? Any help would be much appreciated again.

Thank you! Phoebe

SwissRegulon_human_and_mouse.txt

kaizhang commented 3 years ago

You need to format the TF names: https://taiji-pipeline.github.io/documentation/options.html#motif-file

phoebe460 commented 3 years ago

Sorry I haven't closed this issue yet. So I think I've decided not to use SwissRegulon motif file anymore with Taiji, but if I come across any other issues, will certainly let you know. Thanks again for all your help @kaizhang!