Mercurial > repos > malex > secimtools
diff generate_rank_wide.xml @ 1:2e7d47c0b027 draft
"planemo upload for repository https://malex@toolshed.g2.bx.psu.edu/repos/malex/secimtools"
author | malex |
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date | Mon, 08 Mar 2021 22:04:06 +0000 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/generate_rank_wide.xml Mon Mar 08 22:04:06 2021 +0000 @@ -0,0 +1,55 @@ +<tool id="secimtools_generate_rank_wide" name="Ranked wide file" version="@WRAPPER_VERSION@"> + <description>Generate a wide format file with ranked columns from an input wide file.</description> + <macros> + <import>macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="exit_code"><![CDATA[ +addGroupRank.py +--wide $wide +--design $design +--out $out +#if $ngroup: + --ngroup $ngroup +#end if +--rank $rank +--uniqID $uniqID + ]]></command> + <inputs> + <param name="wide" type="data" format="tabular" label="Wide Dataset" help="Input dataset in wide format and tab separated. If file is not tab separated see TIP below."/> + <param name="design" type="data" format="tabular" label="Design File" help="Design file tab separated. Note you need a 'sampleID' column. If not tab separated see TIP below."/> + <param name="uniqID" type="text" size="30" value="rowID" label="Unique Feature ID" help="Name of the column in your Wide Dataset that has unique Feature IDs."/> + <param name="ngroup" type="integer" size="30" value="" optional="true" label="number of groups for each feature being ranked" help="number of bins/groups for each feature being ranked. If there is no input, the default behavir is ranking each column."/> + <param name="rank" type="text" size="30" value="Rank" label=" Name of flag column" help="The column name in your design file that contains the flags to specify whether a sampleID will be ranked in the input wide file."/> + </inputs> + <outputs> + <data format="tabular" name="out" label="${tool.name} on ${on_string}: Results Table"/> + </outputs> + + <help><![CDATA[ + +@TIP_AND_WARNING@ + +**Tool Description** + +The tool is used to generate a wide format file with each column being ranked in the input wide format dataset. + +-------------------------------------------------------------------------------- + +**Input** + + - Two input datasets are required. + + +-------------------------------------------------------------------------------- + +**Output** + +The user will get a output file from the tool: + +(1) a wide format file with each column being ranked. The columns will be selected using the flag column in the design file. + + + ]]></help> + <expand macro="citations"/> +</tool>