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comparison freebayes.xml @ 15:c3da1614f96d draft

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"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/freebayes commit a89c26123a658a71af5a0a66245b977384ab8867"
author iuc
date Fri, 03 Dec 2021 22:27:08 +0000
parents 91271de440f0
children a2feedafda6f
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14:91271de440f0 15:c3da1614f96d
1 <tool id="freebayes" name="FreeBayes" version="@TOOL_VERSION@+galaxy0"> 1 <tool id="freebayes" name="FreeBayes" version="@TOOL_VERSION@+galaxy1">
2 <description>bayesian genetic variant detector</description> 2 <description>bayesian genetic variant detector</description>
3 <xrefs> 3 <xrefs>
4 <xref type="bio.tools">freebayes</xref> 4 <xref type="bio.tools">freebayes</xref>
5 </xrefs> 5 </xrefs>
6 <macros> 6 <macros>
179 ## REALIGNMENT 179 ## REALIGNMENT
180 ${options_type.O} 180 ${options_type.O}
181 181
182 ##INPUT FILTERS 182 ##INPUT FILTERS
183 #if str( $options_type.input_filters.input_filters_selector ) == "set": 183 #if str( $options_type.input_filters.input_filters_selector ) == "set":
184 $standard_filters 184 ${options_type.input_filters.standard_filters}
185 ${options_type.input_filters.use_duplicate_reads} 185 ${options_type.input_filters.use_duplicate_reads}
186 --min-mapping-quality ${options_type.input_filters.min_mapping_quality} 186 --min-mapping-quality ${options_type.input_filters.min_mapping_quality}
187 --min-base-quality ${options_type.input_filters.min_base_quality} 187 --min-base-quality ${options_type.input_filters.min_base_quality}
188 --min-supporting-allele-qsum ${options_type.input_filters.min_supporting_allele_qsum} 188 --min-supporting-allele-qsum ${options_type.input_filters.min_supporting_allele_qsum}
189 --min-supporting-mapping-qsum ${options_type.input_filters.min_supporting_mapping_qsum} 189 --min-supporting-mapping-qsum ${options_type.input_filters.min_supporting_mapping_qsum}