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comparison vcffilter.xml @ 7:eae7c08ebb6f draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tool_collections/vcflib/vcffilter commit de12f177c2b5ee215ce2c5d48c801406944e3a00
author iuc
date Thu, 02 May 2019 18:33:46 -0400
parents 9442e22779ca
children 81972652519c
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6:9442e22779ca 7:eae7c08ebb6f
84 84
85 To specify filters, click on the 'Insert Add filters' button, choose a filter type 85 To specify filters, click on the 'Insert Add filters' button, choose a filter type
86 (e.g., 'Info filter' or 'Genotype filter'), and specify filter value according to the 86 (e.g., 'Info filter' or 'Genotype filter'), and specify filter value according to the
87 following pattern:: 87 following pattern::
88 88
89 - For 'Info filter (-f)':: {ID} {operator} {value} 89 - For 'Info filter (-f)':: {ID} {operator} {value}
90 For instance:: DP > 10 90 For instance:: DP > 10
91 91
92 - For 'Genotype fields (-g)':: {ID} {operator} {value} 92 - For 'Genotype fields (-g)':: {ID} {operator} {value}
93 For instance:: GT = 1|1 93 For instance:: GT = 1|1
94 94
95 - For 'Flag' fields (when 'Info filter (-f)' is selected for filter type field):: {value} 95 - For 'Flag' fields (when 'Info filter (-f)' is selected for filter type field):: {value}
96 For instance:: CpG 96 For instance:: CpG
97 97
98 Any number of filters may be specified. They are combined via logical AND unless the --or option is specified. For convenience, you can specify "QUAL" to refer to the quality of the site, even though it does not appear in the INFO fields. 98 Any number of filters may be specified. They are combined via logical AND unless the --or option is specified. For convenience, you can specify "QUAL" to refer to the quality of the site, even though it does not appear in the INFO fields.
99 99
100 Operators can be any of:: 100 Operators can be any of::