Mercurial > repos > mheinzl > variant_analyzer2

comparison read2mut.py @ 16:30aec05d04d3 draft

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planemo upload for repository https://github.com/Single-Molecule-Genetics/VariantAnalyzerGalaxy/tree/master/tools/variant_analyzer commit ee4a8e6cf290e6c8a4d55f9cd2839d60ab3b11c8
author mheinzl
date Mon, 22 Feb 2021 14:33:12 +0000
parents bcdb63df70ce
children f06067bedfc5
comparison
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15:6f4c61123a36 16:30aec05d04d3
62 parser.add_argument('--trim', type=int, default=10, 62 parser.add_argument('--trim', type=int, default=10,
63 help='Integer threshold for assigning mutations at start and end of reads to lower tier. Default 10.') 63 help='Integer threshold for assigning mutations at start and end of reads to lower tier. Default 10.')
64 parser.add_argument('--chimera_correction', action="store_true", 64 parser.add_argument('--chimera_correction', action="store_true",
65 help='Count chimeric variants and correct the variant frequencies') 65 help='Count chimeric variants and correct the variant frequencies')
66 parser.add_argument('--delim_csv', type=str, default=",", 66 parser.add_argument('--delim_csv', type=str, default=",",
67 help='Deliminator in csv summary file. Default comma.') 67 help='Delimiter in csv summary file. Default comma.')
68 68
69 69
70 return parser 70 return parser
71 71
72 72