Mercurial > repos > ebi-gxa > scanpy_filter_cells
diff scanpy-filter-cells.xml @ 4:1b0fdf08a454 draft
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit 1d069e25584e436d7628694cb8853a15f1f85604
| author | ebi-gxa |
|---|---|
| date | Wed, 20 Nov 2019 05:18:49 -0500 |
| parents | 8e48fa9618c1 |
| children | 9b2072ee4bdd |
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--- a/scanpy-filter-cells.xml Mon Oct 28 05:27:24 2019 -0400 +++ b/scanpy-filter-cells.xml Wed Nov 20 05:18:49 2019 -0500 @@ -1,5 +1,5 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="scanpy_filter_cells" name="Scanpy FilterCells" version="@TOOL_VERSION@+galaxy1"> +<tool id="scanpy_filter_cells" name="Scanpy FilterCells" version="@TOOL_VERSION@+galaxy0"> <description>based on counts and numbers of genes expressed</description> <macros> <import>scanpy_macros2.xml</import> @@ -16,7 +16,7 @@ ${pars} #end if #if $categories - #set cats = ' '.join(['--category c:{name} {values}'.format(**$c) for $c in $categories]) + #set cats = ' '.join(["--category c:{name} '{negate}{values}'".format(**$c) for $c in $categories]) ${cats} #end if #if $subsets @@ -47,7 +47,8 @@ <repeat name="categories" title="Categories used to filter cells" min="0"> <param name="name" type="text" value="" label="Name of the categorical variable to filter on"/> - <param name="values" type="text" value="" label="Comma-separated values to keep"/> + <param name="values" type="text" value="" label="Comma-separated list of categories"/> + <param name="negate" type="boolean" truevalue="!" falsevalue="" checked="false" label="Apply as negative filter" help="If enabled, specified categories will be removed rather than retained."/> </repeat> <repeat name="subsets" title="Subsets used to filter cells" min="0">