Mercurial > repos > galaxyp > openms_falsediscoveryrate

comparison FalseDiscoveryRate.xml @ 13:469690558892 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 55a2aeba8bfd8a6910630721de9857dcdfe05d3c"
author galaxyp
date Tue, 13 Oct 2020 20:34:13 +0000
parents 100359fb8e7c
children 6ccbf9a2072c
comparison
equal deleted inserted replaced
12:d07cd351f8ae 13:469690558892
61 <param name="add_decoy_peptides" argument="-algorithm:add_decoy_peptides" type="boolean" truevalue="true" falsevalue="false" checked="false" label="If 'true' decoy peptides will be written to output file, too" help="The q-value is set to the closest target score"/> 61 <param name="add_decoy_peptides" argument="-algorithm:add_decoy_peptides" type="boolean" truevalue="true" falsevalue="false" checked="false" label="If 'true' decoy peptides will be written to output file, too" help="The q-value is set to the closest target score"/>
62 <param name="add_decoy_proteins" argument="-algorithm:add_decoy_proteins" type="boolean" truevalue="true" falsevalue="false" checked="false" label="If 'true' decoy proteins will be written to output file, too" help="The q-value is set to the closest target score"/> 62 <param name="add_decoy_proteins" argument="-algorithm:add_decoy_proteins" type="boolean" truevalue="true" falsevalue="false" checked="false" label="If 'true' decoy proteins will be written to output file, too" help="The q-value is set to the closest target score"/>
63 <param name="conservative" argument="-algorithm:conservative" type="boolean" truevalue="true" falsevalue="false" checked="true" label="If 'true' (D+1)/T instead of (D+1)/(T+D) is used as a formula" help=""/> 63 <param name="conservative" argument="-algorithm:conservative" type="boolean" truevalue="true" falsevalue="false" checked="true" label="If 'true' (D+1)/T instead of (D+1)/(T+D) is used as a formula" help=""/>
64 </section> 64 </section>
65 <expand macro="adv_opts_macro"> 65 <expand macro="adv_opts_macro">
66 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overwrite tool specific checks" help=""/> 66 <param name="force" argument="-force" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Overrides tool-specific checks" help=""/>
67 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help=""> 67 <param name="test" argument="-test" type="hidden" optional="true" value="False" label="Enables the test mode (needed for internal use only)" help="">
68 <expand macro="list_string_san"/> 68 <expand macro="list_string_san"/>
69 </param> 69 </param>
70 </expand> 70 </expand>
71 <param name="OPTIONAL_OUTPUTS" type="select" multiple="true" label="Optional outputs" optional="true"> 71 <param name="OPTIONAL_OUTPUTS" type="select" optional="true" multiple="true" label="Optional outputs">
72 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option> 72 <option value="ctd_out_FLAG">Output used ctd (ini) configuration file</option>
73 </param> 73 </param>
74 </inputs> 74 </inputs>
75 <outputs> 75 <outputs>
76 <data name="out" label="${tool.name} on ${on_string}: out" format="idxml"/> 76 <data name="out" label="${tool.name} on ${on_string}: out" format="idxml"/>
83 <expand macro="manutest_FalseDiscoveryRate"/> 83 <expand macro="manutest_FalseDiscoveryRate"/>
84 </tests> 84 </tests>
85 <help><![CDATA[Estimates the false discovery rate on peptide and protein level using decoy searches. 85 <help><![CDATA[Estimates the false discovery rate on peptide and protein level using decoy searches.
86 86
87 87
88 For more information, visit http://www.openms.de/documentation/TOPP_FalseDiscoveryRate.html]]></help> 88 For more information, visit http://www.openms.de/doxygen/release/2.6.0/html/TOPP_FalseDiscoveryRate.html]]></help>
89 <expand macro="references"/> 89 <expand macro="references"/>
90 </tool> 90 </tool>