Mercurial > repos > bgruening > deeptools_compute_matrix

comparison computeMatrix.xml @ 1:de51aa03c9b9 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/fidelram/deepTools/tree/master/galaxy/wrapper/ commit 4fc171a2e9d37ef865695a04ff1b12068d8fe427
author bgruening
date Fri, 18 Dec 2015 08:01:48 -0500
parents f1db8b6a8743
children 2f2dd609644f
comparison
equal deleted inserted replaced
0:f1db8b6a8743 1:de51aa03c9b9
57 57
58 #if $advancedOpt.showAdvancedOpt == "yes": 58 #if $advancedOpt.showAdvancedOpt == "yes":
59 --sortRegions '$advancedOpt.sortRegions' 59 --sortRegions '$advancedOpt.sortRegions'
60 --sortUsing '$advancedOpt.sortUsing' 60 --sortUsing '$advancedOpt.sortUsing'
61 --averageTypeBins '$advancedOpt.averageTypeBins' 61 --averageTypeBins '$advancedOpt.averageTypeBins'
62 $advancedOpt.keepNAs 62 $advancedOpt.skipNAs
63 $advancedOpt.skipZeros 63 $advancedOpt.skipZeros
64 --binSize $advancedOpt.binSize 64 --binSize $advancedOpt.binSize
65 65
66 #if $advancedOpt.minThreshold is not None and str($advancedOpt.minThreshold) != '': 66 #if $advancedOpt.minThreshold is not None and str($advancedOpt.minThreshold) != '':
67 --minThreshold $advancedOpt.minThreshold 67 --minThreshold $advancedOpt.minThreshold
180 <option value="max">max</option> 180 <option value="max">max</option>
181 <option value="sum">sum</option> 181 <option value="sum">sum</option>
182 <option value="std">std</option> 182 <option value="std">std</option>
183 </param> 183 </param>
184 184
185 <expand macro="keepNAs" /> 185 <param name="missingDataAsZero" type="boolean" truevalue="--missingDataAsZero" falsevalue="" checked="False"
186 label="Convert missing values to 0?."
187 help="If set to 'yes', missing values (NAs) are converted to 0.
188 The default is to ignore such cases, which will be
189 depicted as black areas in the heatmap by default." />
190
186 <expand macro="skipZeros" /> 191 <expand macro="skipZeros" />
187 192
188 <param name="minThreshold" type="float" optional="True" 193 <param name="minThreshold" type="float" optional="True"
189 label="Minimum threshold" 194 label="Minimum threshold"
190 help="Any region containing a value that is equal or less than this numeric 195 help="Any region containing a value that is equal or less than this numeric
217 <param name="showAdvancedOpt" value="yes" /> 222 <param name="showAdvancedOpt" value="yes" />
218 <param name="mode_select" value="reference-point" /> 223 <param name="mode_select" value="reference-point" />
219 <param name="binSize" value="10" /> 224 <param name="binSize" value="10" />
220 <param name="sortUsing" value="sum" /> 225 <param name="sortUsing" value="sum" />
221 <param name="averageTypeBins" value="sum" /> 226 <param name="averageTypeBins" value="sum" />
222 <param name="keepNAs" value="True" /> 227 <param name="skipNAs" value="False" />
223 <param name="beforeRegionStartLength" value="10" /> 228 <param name="beforeRegionStartLength" value="10" />
224 <param name="afterRegionStartLength" value="10" /> 229 <param name="afterRegionStartLength" value="10" />
225 <output name="outFileName" file="computeMatrix_result1.gz" ftype="deeptools_compute_matrix_archive" compare="sim_size" /> 230 <output name="outFileName" file="computeMatrix_result1.gz" ftype="deeptools_compute_matrix_archive" compare="sim_size" />
226 </test> 231 </test>
227 <test> 232 <test>