Mercurial > repos > jay > pdaug_peptide_structure_builder
view PDAUG_Peptide_Length_Distribution/PDAUG_Peptide_Length_Distribution.py @ 7:ab136a857686 draft
"planemo upload for repository https://github.com/jaidevjoshi83/pdaug commit 32b9c48c81639a81be24bb3e2f48dc0a81c0deca"
author | jay |
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date | Sun, 09 Jan 2022 04:30:05 +0000 |
parents | 0118cc553f3b |
children |
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import matplotlib.pyplot as plt import Bio from Bio import SeqIO import os def LegnthDestribution(InFile, OutFile): sizes = [len(rec.seq) for rec in SeqIO.parse(InFile, "fasta")] plt.hist(sizes, bins=20) plt.title("%i Negative bacteriocin sequences\nLengths %i to %i" \ % (len(sizes),min(sizes),max(sizes))) plt.xlabel("Sequence length (bp)") plt.ylabel("Count") plt.savefig(OutFile) if __name__=="__main__": import argparse parser = argparse.ArgumentParser() parser.add_argument("-I", "--InFile", required=True, default=None, help="Input file name") parser.add_argument("-O", "--OutFile", required=False, default="Out.png", help="Input file name") args = parser.parse_args() LegnthDestribution(args.InFile, args.OutFile)