Mercurial > repos > gianmarco_piccinno > project_rm

comparison codon_usage.py @ 34:6e6b1fd6eda1 draft

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author gianmarco_piccinno
date Wed, 12 Dec 2018 09:09:29 -0500
parents 3cb2af2435d3
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33:1a9b703d6e17 34:6e6b1fd6eda1
140 args = vars(parser.parse_args()) 140 args = vars(parser.parse_args())
141 141
142 seqs = read_input(data=args['input'], type_=args['type']) 142 seqs = read_input(data=args['input'], type_=args['type'])
143 out = codon_usage(seqs, args['codonTable']) 143 out = codon_usage(seqs, args['codonTable'])
144 144
145 with open(args['output']+".csv", "w") as outf: 145 with open(args['output'], "w") as outf:
146 out["Table"].to_csv(outf, sep="\t", index_label=["AA", "Codon"]) 146 out["Table"].to_csv(outf, sep="\t", index_label=["AA", "Codon"])
147 147
148 148