Mercurial > repos > ebi-gxa > scanpy_filter_cells
comparison scanpy-filter-cells.xml @ 20:7fd39eb52f38 draft
"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 |
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date | Wed, 05 May 2021 12:08:46 +0000 |
parents | cf3fb754ddde |
children | e9283529cba1 |
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19:df56c78c5a8e | 20:7fd39eb52f38 |
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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"/> |