Created
August 29, 2012 21:36
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Extract Sequences
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| """ | |
| %prog some.fasta wanted-list.txt | |
| """ | |
| from Bio import SeqIO | |
| import sys | |
| wanted = [line.strip() for line in open(sys.argv[2])] | |
| seqiter = SeqIO.parse(open(sys.argv[1]), 'fasta') | |
| SeqIO.write((seq for seq in seqiter if seq.id in wanted), sys.stdout, "fasta") |
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