Mercurial > repos > jay > pdaug_uversky_plot
view PDAUG_Peptide_Length_Distribution/PDAUG_Peptide_Length_Distribution.py @ 2:5637b997244e draft
"planemo upload for repository https://github.com/jaidevjoshi83/pdaug commit 8b18552f6d2b2261efebe1075ff4c18a295b94dd"
author | jay |
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date | Tue, 29 Dec 2020 18:23:37 +0000 |
parents | 070fc1da6df7 |
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)