Mercurial > repos > galaxyp > openms_idposteriorerrorprobability
comparison ctd/OpenSwathRewriteToFeatureXML.ctd @ 18:6daaa75ccb99 draft
"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 6e7368b7f178fbd1f08c28eea1b538add6943a65-dirty"
| author | galaxyp |
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| date | Sun, 13 Dec 2020 15:03:50 +0000 |
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| children |
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| 17:6f6c1cb968a0 | 18:6daaa75ccb99 |
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| 1 <?xml version="1.0" encoding="UTF-8"?> | |
| 2 <tool ctdVersion="1.7" version="2.6.0-pre-exported-20201001" name="OpenSwathRewriteToFeatureXML" docurl="http://www.openms.de/documentation/UTILS_OpenSwathRewriteToFeatureXML.html" category="Targeted Experiments" > | |
| 3 <description><![CDATA[Combines featureXML and mProphet tsv to FDR filtered featureXML.]]></description> | |
| 4 <manual><![CDATA[Combines featureXML and mProphet tsv to FDR filtered featureXML.]]></manual> | |
| 5 <citations> | |
| 6 <citation doi="10.1038/nmeth.3959" url="" /> | |
| 7 </citations> | |
| 8 <PARAMETERS version="1.7.0" xsi:noNamespaceSchemaLocation="https://raw.githubusercontent.com/OpenMS/OpenMS/develop/share/OpenMS/SCHEMAS/Param_1_7_0.xsd" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance"> | |
| 9 <NODE name="OpenSwathRewriteToFeatureXML" description="Combines featureXML and mProphet tsv to FDR filtered featureXML."> | |
| 10 <ITEM name="version" value="2.6.0-pre-exported-20201001" type="string" description="Version of the tool that generated this parameters file." required="false" advanced="true" /> | |
| 11 <NODE name="1" description="Instance '1' section for 'OpenSwathRewriteToFeatureXML'"> | |
| 12 <ITEM name="csv" value="" type="input-file" description="mProphet tsv output file: "all_peakgroups.xls"" required="false" advanced="false" supported_formats="*.csv" /> | |
| 13 <ITEM name="featureXML" value="" type="input-file" description="input featureXML file" required="true" advanced="false" supported_formats="*.featureXML" /> | |
| 14 <ITEM name="out" value="" type="output-file" description="output featureXML file" required="true" advanced="false" supported_formats="*.featureXML" /> | |
| 15 <ITEM name="FDR_cutoff" value="-1.0" type="double" description="FDR cutoff (e.g. to remove all features with a an m_score above 0.05 use 0.05 here)" required="false" advanced="false" /> | |
| 16 <ITEM name="log" value="" type="string" description="Name of log file (created only when specified)" required="false" advanced="true" /> | |
| 17 <ITEM name="debug" value="0" type="int" description="Sets the debug level" required="false" advanced="true" /> | |
| 18 <ITEM name="threads" value="1" type="int" description="Sets the number of threads allowed to be used by the TOPP tool" required="false" advanced="false" /> | |
| 19 <ITEM name="no_progress" value="false" type="bool" description="Disables progress logging to command line" required="false" advanced="true" /> | |
| 20 <ITEM name="force" value="false" type="bool" description="Overrides tool-specific checks" required="false" advanced="true" /> | |
| 21 <ITEM name="test" value="false" type="bool" description="Enables the test mode (needed for internal use only)" required="false" advanced="true" /> | |
| 22 </NODE> | |
| 23 </NODE> | |
| 24 </PARAMETERS> | |
| 25 </tool> |