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
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" )
+