| Previous changeset 2:48c1e7b39675 (2020-03-16) Next changeset 4:d552332dff6d (2020-07-06) |
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Commit message:
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit e1ed5cbba4d1c042b91cefec41f98e7c736dfbe2" |
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modified:
dropletutils-read-10x.xml dropletutils_macros.xml |
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| diff -r 48c1e7b39675 -r 058a41379291 dropletutils-read-10x.xml --- a/dropletutils-read-10x.xml Mon Mar 16 10:35:03 2020 -0400 +++ b/dropletutils-read-10x.xml Mon Jun 29 13:04:07 2020 -0400 |
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| @@ -1,5 +1,5 @@ <?xml version="1.0" encoding="utf-8"?> -<tool id="dropletutils_read_10x" name="DropletUtils Read10x" version="@TOOL_VERSION@+galaxy0"> +<tool id="dropletutils_read_10x" name="DropletUtils Read10x" version="@TOOL_VERSION@+galaxy1"> <description>into SingleCellExperiment object</description> <macros> <import>dropletutils_macros.xml</import> @@ -13,12 +13,26 @@ -s . -c TRUE -o '${output_rds}' + +#if $add_metadata_file +--metadata-files "${metadata_files}" +--cell-id-column "${cell_id_column}" +#end if + + ]]></command> <inputs> <param name="matrix" type="data" format="txt" label="Expression matrix in sparse matrix format (.mtx)"/> <param name="genes" type="data" format="tsv,tabular" label="Gene table"/> <param name="barcodes" type="data" format="tsv,tabular" label="Barcode/cell table"/> + <conditional name="add_metadata"> + <param name="add_metadata_file" type="boolean" checked="false" label="Should metadata file be added?" /> + <when value="true" > + <param name="metadata_files" type="data" label="Metadata file" help="Provide metadata file e.g. containing cell types"/> + <param name="cell_id_column" type="text" label="Cell ID column" help="Cell ID column. Values must match those provided in the expression matrix." /> + </when> + </conditional> </inputs> <outputs> |
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| diff -r 48c1e7b39675 -r 058a41379291 dropletutils_macros.xml --- a/dropletutils_macros.xml Mon Mar 16 10:35:03 2020 -0400 +++ b/dropletutils_macros.xml Mon Jun 29 13:04:07 2020 -0400 |
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| @@ -18,6 +18,7 @@ <xml name="citations"> <citations> <citation type="doi">10.1101/234872</citation> + <citation type="doi">10.1101/2020.04.08.032698</citation> </citations> </xml> </macros> |