Mercurial > repos > md-anderson-bioinformatics > heat_map_creation
comparison mda_heatmap_gen.xml @ 41:8acca16f3921 draft
Uploaded
| author | insilico-bob |
|---|---|
| date | Tue, 28 Jan 2020 15:32:19 -0500 |
| parents | 8f8ab332a050 |
| children | 2f57ac512f46 |
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| 40:8f8ab332a050 | 41:8acca16f3921 |
|---|---|
| 17 <stdio> | 17 <stdio> |
| 18 <exit_code range="1:" level="fatal" /> | 18 <exit_code range="1:" level="fatal" /> |
| 19 </stdio> | 19 </stdio> |
| 20 <inputs> | 20 <inputs> |
| 21 <param name="inputmatrix" type="data" format="Tabular" label="Input Data Matrix" help="Tab delimited text file with row labels, column labels, and data." /> | 21 <param name="inputmatrix" type="data" format="Tabular" label="Input Data Matrix" help="Tab delimited text file with row labels, column labels, and data." /> |
| 22 <param name="hmname" size="40" type="text" value="Heat_Map_name" label="Heat Map Name" help="Short Name for heat map (no spaces)."/> | 22 <param name="hmname" size="40" type="text" value="Heat_Map_name" label="Heat Map Name" help="Short Name for heat map (no spaces)." optional="false"/> |
| 23 <sanitizer> | 23 <sanitizer> |
| 24 <valid> | 24 <valid initial="string.printable"> |
| 25 <add preset="string.printable"/> | |
| 26 <remove value="""/> | 25 <remove value="""/> |
| 27 <remove value="'"/> | 26 <remove value="'"/> |
| 28 <remove value=" "/> | |
| 29 </valid> | 27 </valid> |
| 30 </sanitizer> | 28 </sanitizer> |
| 31 <param name="hmdesc" size="100" optional="true" type="text" value="Heat_Map_description" label="Heat Map Description" help="Longer description of the heat map contents."/> | 29 <param name="hmdesc" size="100" optional="true" type="text" value="Heat_Map_description" label="Heat Map Description" help="Longer description of the heat map contents."/> |
| 32 <sanitizer> | 30 <sanitizer> |
| 33 <valid> | 31 <valid initial="string.printable"> |
| 34 <add preset="string.printable"/> | |
| 35 <add value="string.letters"/> | |
| 36 <add value="string.digits"/> | |
| 37 <add value="-"/> | |
| 38 <add value="_"/> | |
| 39 <remove value="""/> | 32 <remove value="""/> |
| 40 <remove value="'"/> | 33 <remove value="'"/> |
| 41 <remove value=" "/> | |
| 42 </valid> | 34 </valid> |
| 43 </sanitizer> | 35 </sanitizer> |
| 44 <param name="summarymethod" type="select" label="Data Summarization Method" help="For large matrices, the selected method is used to aggregate data values in the summary view."> | 36 <param name="summarymethod" type="select" label="Data Summarization Method" help="For large matrices, the selected method is used to aggregate data values in the summary view."> |
| 45 <option value="average">Average</option> | 37 <option value="average">Average</option> |
| 46 <option value="sample">Sample</option> | 38 <option value="sample">Sample</option> |
| 47 <option value="mode">Mode</option> | 39 <option value="mode">Mode</option> |
| 48 </param> | 40 </param> |
| 115 <param name="columnDistanceMeasure" type="text" size="0" hidden="true" value="n/a"/> | 107 <param name="columnDistanceMeasure" type="text" size="0" hidden="true" value="n/a"/> |
| 116 <param name="columnAgglomerationMethod" type="text" size="0" hidden="true" value="n/a"/> | 108 <param name="columnAgglomerationMethod" type="text" size="0" hidden="true" value="n/a"/> |
| 117 </when> | 109 </when> |
| 118 </conditional> | 110 </conditional> |
| 119 <repeat name="operations" title="Covariate Bars"> | 111 <repeat name="operations" title="Covariate Bars"> |
| 120 <param name="class_name" size="25" type="text" value="" label="Covariate Name" help="Covariate heat map display label."> | 112 <param name="class_name" size="25" type="text" value="" label="Covariate Name" optional="false" help="Covariate heat map display label."> |
| 121 <sanitizer> | 113 <sanitizer> |
| 122 <valid> | 114 <valid initial="string.printable"> |
| 123 <add preset="string.printable"/> | |
| 124 <remove value="""/> | 115 <remove value="""/> |
| 125 <remove value="'"/> | 116 <remove value="'"/> |
| 126 <remove value=" "/> | |
| 127 </valid> | 117 </valid> |
| 128 </sanitizer> | 118 </sanitizer> |
| 129 </param> | 119 </param> |
| 130 <param name="repeatinput" type="data" format="Tabular" label="Covariate File" help="Tab delimited text file with row or column label and covariate value on each line."/> | 120 <param name="repeatinput" type="data" format="Tabular" label="Covariate File" help="Tab delimited text file with row or column label and covariate value on each line."/> |
| 131 <param name="cat" type="select" label="Axis Covariate Type" help="Identify the covariate as belonging to rows or columns and containing categorical or continuous values."> | 121 <param name="cat" type="select" label="Axis Covariate Type" help="Identify the covariate as belonging to rows or columns and containing categorical or continuous values."> |
| 132 <option value="row_discrete" >Row Categorical</option> | 122 <option value="row_discrete" >Row Categorical</option> |
| 133 <option value="row_continuous" >Row Continuous</option> | 123 <option value="row_continuous" >Row Continuous</option> |