How to add motif logo in annotation file?

[ljljolinq1010]

Hi, I am using run_pycistarget for zebrafish analysis, I have generated my custom motif-to-TF annotation file, I am wondering how can I add motif logo information?

[SeppeDeWinter]

Hi @ljljolinq1010

Sorry for the late reply.

As long as the motif-to-TF annotation file follows the convention of the motif-to-TF annotation files we host for human, mouse and fly (see: https://resources.aertslab.org/cistarget/motif2tf/). And as long as you don't have any motifs which are not present in our collection, the logo's will be automatically pulled from our server. For an example on how this is done, see:

pycistarget/pycistarget/motif_enrichment_cistarget.py

Line 425 in 0ed8289

motif_enrichment_w_annot['Logo']=['<img src="' +'https://motifcollections.aertslab.org/' + self.annotation_version + '/logos/'+ motif_enrichment_w_annot.index.tolist()[i] + '.png' + '" width="200" >' for i in range(motif_enrichment_w_annot.shape[0])]

Best,

Seppe

[ljljolinq1010]

I see, thanks a lot.