Mercurial > repos > bgruening > protein_properties
diff protein_properties.py @ 0:cd211b8c2e51 draft default tip
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/protein_properties commit 6767a5ffb02052c844e9d862c79912f998f39d8e
author | bgruening |
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date | Mon, 20 Nov 2017 05:09:21 -0500 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/protein_properties.py Mon Nov 20 05:09:21 2017 -0500 @@ -0,0 +1,23 @@ +#!/usr/bin/env python + +import sys +from Bio import SeqIO +from Bio.SeqUtils.ProtParam import ProteinAnalysis + +sys.stdout.write("ID\tMW\tIP\tgravy\tlength\tinstability\tmonoisotpoic\tSequence\n") + +for record in SeqIO.parse(sys.stdin, "fasta"): + a = ProteinAnalysis(str(record.seq)) + + properties = list() + properties.append(record.id) + properties.append(a.molecular_weight()) + properties.append(a.isoelectric_point()) + properties.append(a.gravy()) + properties.append(a.length) + properties.append(a.instability_index()) + properties.append(a.aromaticity()) + # always last column to make the output more readable + properties.append(a.sequence) + sys.stdout.write( '\t'.join(map(str, properties))+"\n" ) +