Include - in part of the motif for analysis? And "It looks like we don't support this file format" when opening weblogo motif
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Entering edit mode
26 days ago
minifoog • 0
seqList = []
#basic_data_set_aligned contain one letter amino acid sequences
inFile = open("basic_data_set_aligned.fasta",'r')
for record in SeqIO.parse(inFile,'fasta'):
   seqList.append(str(record.seq))
m = motifs.create(seqList, alphabet='ACDEFGHIKLMNPQRSTVWYBXZJUO-')
print(m.counts)

m.weblogo("mymotif.png")

Dashes in seqList are my aligners to the other sequences. Is it ideal, for an motif, to include dashes for analysis? Also, the .png file made from using .weblogo is for some reason not recognizing on my computer though I have open many .png files. Any help would be appreciated

motif aminoacids sequence biopython weblogo • 2.2k views
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