Mercurial > repos > jay > pdaug_sequence_similarity_network
view PDAUG_Peptide_Length_Distribution/PDAUG_Peptide_Length_Distribution.py @ 0:e650de82bcc7 draft
"planemo upload for repository https://github.com/jaidevjoshi83/pdaug commit a9bd83f6a1afa6338cb6e4358b63ebff5bed155e"
author | jay |
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date | Wed, 28 Oct 2020 01:50:00 +0000 |
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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)