Mercurial > repos > ebi-gxa > scanpy_filter_cells

comparison scanpy-filter-cells.xml @ 20:7fd39eb52f38 draft

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"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/tree/develop/tools/tertiary-analysis/scanpy commit ebe77c8718ec65277f4dc0d71fa5f4c5677df62d-dirty"
author ebi-gxa
date Wed, 05 May 2021 12:08:46 +0000
parents cf3fb754ddde
children e9283529cba1
comparison
equal deleted inserted replaced
19:df56c78c5a8e 20:7fd39eb52f38
28 #end if 28 #end if
29 #if $subsets 29 #if $subsets
30 #set subs = ' '.join(["--subset 'c:{name}' '{subset}'".format(**$s) for $s in $subsets]) 30 #set subs = ' '.join(["--subset 'c:{name}' '{subset}'".format(**$s) for $s in $subsets])
31 ${subs} 31 ${subs}
32 #end if 32 #end if
33 @SAVE_MATRIX_OPTS@
33 @INPUT_OPTS@ 34 @INPUT_OPTS@
34 @OUTPUT_OPTS@ 35 @OUTPUT_OPTS@
35 @EXPORT_MTX_OPTS@ 36 @EXPORT_MTX_OPTS@
36 ]]></command> 37 ]]></command>
37 38
61 <repeat name="subsets" title="Subsets to select cells to keep" min="0"> 62 <repeat name="subsets" title="Subsets to select cells to keep" min="0">
62 <param name="name" type="text" value="" label="Name of the categorical variable to filter on"/> 63 <param name="name" type="text" value="" label="Name of the categorical variable to filter on"/>
63 <param name="subset" type="data" format="tabular" label="List of values to keep" help="A one-column headerless text file is required"/> 64 <param name="subset" type="data" format="tabular" label="List of values to keep" help="A one-column headerless text file is required"/>
64 </repeat> 65 </repeat>
65 <param name="force_recalc" label="Force recalculation of QC vars" type="boolean" truevalue="--force-recalc" falsevalue="" help="If set, it will recalculate pcts and other existing QC vars, overwriting existing ones."/> 66 <param name="force_recalc" label="Force recalculation of QC vars" type="boolean" truevalue="--force-recalc" falsevalue="" help="If set, it will recalculate pcts and other existing QC vars, overwriting existing ones."/>
67 <expand macro="save_matrix_params"/>
66 <expand macro="export_mtx_params"/> 68 <expand macro="export_mtx_params"/>
67 </inputs> 69 </inputs>
68 70
69 <outputs> 71 <outputs>
70 <expand macro="output_data_obj" description="Filtered cells"/> 72 <expand macro="output_data_obj" description="Filtered cells"/>