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comparison peptide_shaker.xml @ 52:864bd76db767 draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/peptideshaker commit 9dc7c9c3ebd64f14c0ce95a0dc190361a90fa4fb
author galaxyp
date Wed, 16 Jan 2019 08:18:39 -0500
parents 5814883aa217
children d67a3c1bfd09
comparison
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51:66690eb50a32 52:864bd76db767
1 <tool id="peptide_shaker" name="Peptide Shaker" version="@PEPTIDESHAKER_VERSION@"> 1 <tool id="peptide_shaker" name="Peptide Shaker" version="@PEPTIDESHAKER_VERSION@.2">
2 <description> 2 <description>
3 Perform protein identification using various search engines based on results from SearchGUI 3 Perform protein identification using various search engines based on results from SearchGUI
4 </description> 4 </description>
5 <macros> 5 <macros>
6 <import>macros.xml</import> 6 <import>macros.xml</import>
191 <param name="psm_fdr" label="FDR at the PSM level" help="In percent (default 1% FDR: '1')" value="1" type="float" /> 191 <param name="psm_fdr" label="FDR at the PSM level" help="In percent (default 1% FDR: '1')" value="1" type="float" />
192 <param name="protein_fraction_mw_confidence" value="95.0" type="float" label="Minimum confidence required for a protein in the fraction MW plot" 192 <param name="protein_fraction_mw_confidence" value="95.0" type="float" label="Minimum confidence required for a protein in the fraction MW plot"
193 help="default 95%: '95.0'" /> 193 help="default 95%: '95.0'" />
194 <conditional name="ptm_score"> 194 <conditional name="ptm_score">
195 <param name="ptm_score_selector" type="select" label="The PTM probabilistic score to use for PTM localization"> 195 <param name="ptm_score_selector" type="select" label="The PTM probabilistic score to use for PTM localization">
196 <option value="0" selected="True">A-score</option> 196 <option value="0">A-score</option>
197 <option value="1">PhosphoRS</option> 197 <option value="1" selected="True">PhosphoRS</option>
198 <option value="2">None</option> 198 <option value="2">None</option>
199 </param> 199 </param>
200 <when value="0" /> 200 <when value="0" />
201 <when value="1"> 201 <when value="1">
202 <param name="score_neutral_losses" label="Include Neutral Losses in A Score" type="boolean" truevalue="1" falsevalue="0" /> 202 <param name="score_neutral_losses" label="Include Neutral Losses in A Score" type="boolean" truevalue="1" falsevalue="0" />