Mercurial > repos > fabio > iwtomics
comparison loadandplot.xml @ 56:9ceb3ffcd817 draft
Uploaded 20170608
| author | fabio |
|---|---|
| date | Thu, 08 Jun 2017 16:44:13 -0400 |
| parents | d49031ef33d5 |
| children | 7a806a3aeda1 |
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| 55:7698612e1dc7 | 56:9ceb3ffcd817 |
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| 230 <data format="tabular" name="outregions" label="${tool.name} on ${on_string}: Region Dataset IDs" from_work_dir="iwtomics.loadandplot.regions.txt" /> | 230 <data format="tabular" name="outregions" label="${tool.name} on ${on_string}: Region Dataset IDs" from_work_dir="iwtomics.loadandplot.regions.txt" /> |
| 231 <data format="tabular" name="outfeatures" label="${tool.name} on ${on_string}: Feature IDs" from_work_dir="iwtomics.loadandplot.features.txt" /> | 231 <data format="tabular" name="outfeatures" label="${tool.name} on ${on_string}: Feature IDs" from_work_dir="iwtomics.loadandplot.features.txt" /> |
| 232 <data format="pdf" name="outpdf" label="${tool.name} on ${on_string}: Plotted Data" from_work_dir="iwtomics.loadandplot.pdf" /> | 232 <data format="pdf" name="outpdf" label="${tool.name} on ${on_string}: Plotted Data" from_work_dir="iwtomics.loadandplot.pdf" /> |
| 233 </outputs> | 233 </outputs> |
| 234 | 234 |
| 235 <tests> | |
| 236 <test> | |
| 237 <param name="regions" value="input/Controls_regions.bed,input/Elements1_regions.bed,input/Elements2_regions.bed,input/Elements3_regions.bed" ftype="bed" /> | |
| 238 <param name="regionsheader" value="input/regions.header.txt" ftype="tabular" /> | |
| 239 <param name="features" value="input/Feature1.bed,input/Feature2.bed" ftype="bed" /> | |
| 240 <param name="featuresheader" value="input/features.header.bed.txt" ftype="tabular" /> | |
| 241 <param name="zerobased" value="TRUE" /> | |
| 242 <param name="smoothing" value="kernel" /> | |
| 243 <param name="alignment" value="center" /> | |
| 244 <param name="kernelbandwidth" value="5" /> | |
| 245 <param name="fillgaps" value="TRUE" /> | |
| 246 <param name="average" value="TRUE" /> | |
| 247 <param name="size" value="TRUE" /> | |
| 248 <param name="plottype" value="boxplot" /> | |
| 249 <param name="prob0" value="0.25" /> | |
| 250 <param name="prob1" value="0.5" /> | |
| 251 <param name="prob2" value="0.75" /> | |
| 252 <output name="outrdata" file="output_loadandplot/iwtomics.loadandplot.RData" compare="sim_size" /> | |
| 253 <output name="outregions" file="output_loadandplot/iwtomics.loadandplot.regions.txt" /> | |
| 254 <output name="outfeatures" file="output_loadandplot/iwtomics.loadandplot.features.txt" /> | |
| 255 <output name="outpdf" file="output_loadandplot/iwtomics.loadandplot.pdf" compare="sim_size" /> | |
| 256 </test> | |
| 257 </tests> | |
| 258 | |
| 235 <help> | 259 <help> |
| 236 This tool imports a collection of genomic region datasets, and associates to each region | 260 This tool imports a collection of genomic region datasets, and associates to each region |
| 237 multiple genomic feature measurements. It allows to align the regions in multiple ways | 261 multiple genomic feature measurements. It allows to align the regions in multiple ways |
| 238 (center, left, right or scale alignment), to smooth the feature curves (possibly filling gaps in the | 262 (center, left, right or scale alignment), to smooth the feature curves (possibly filling gaps in the |
| 239 measurements) and to create a graphical representation of the feature measurements in each | 263 measurements) and to create a graphical representation of the feature measurements in each |