Mercurial > repos > iuc > seurat_create

comparison create_seurat.xml @ 2:af8bdeb89691 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/seurat_v5 commit 08d8b9adb080f075e6ad9f1ddb1ac8117762f1e7
author iuc
date Fri, 08 Nov 2024 19:47:49 +0000
parents a7af4acac32c
children
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1:a7af4acac32c 2:af8bdeb89691
1 <tool id="seurat_create" name="Seurat Create" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@"> 1 <tool id="seurat_create" name="Seurat Create" version="@TOOL_VERSION@+galaxy1" profile="@PROFILE@">
2 <description>- Prepare data for the pipeline</description> 2 <description>- Prepare data for the pipeline</description>
3 <macros> 3 <macros>
4 <import>macros.xml</import> 4 <import>macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="bio_tools"/> 6 <expand macro="bio_tools"/>
235 </param> 235 </param>
236 <when value="mtx"> 236 <when value="mtx">
237 <param name="matrix" type="data" format="mtx" label="Counts matrix with features as rows, cells as columns (.mtx)"/> 237 <param name="matrix" type="data" format="mtx" label="Counts matrix with features as rows, cells as columns (.mtx)"/>
238 <param name="citeseq_boolean" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Matrix includes citeseq data"/> 238 <param name="citeseq_boolean" type="boolean" truevalue="true" falsevalue="false" checked="false" label="Matrix includes citeseq data"/>
239 <param name="gene_names" type="data" format="tsv,tabular" label="List of gene names (for rows)"/> 239 <param name="gene_names" type="data" format="tsv,tabular" label="List of gene names (for rows)"/>
240 <param name="cell_barcodes" type="data" format="tsv,tabular" label="List of cell barcodes (for columns)"/> 240 <param name="cell_barcodes" type="data" format="tsv,tabular,txt" label="List of cell barcodes (for columns)"/>
241 <param name="gene_column" type="integer" value="2" label="Column of gene table to use as gene names" help="(gene.column)"/> 241 <param name="gene_column" type="integer" value="2" label="Column of gene table to use as gene names" help="(gene.column)"/>
242 <param name="cell_column" type="integer" value="1" label="Column of cell table to use as cell names" help="(cell.column)"/> 242 <param name="cell_column" type="integer" value="1" label="Column of cell table to use as cell names" help="(cell.column)"/>
243 <param name="unique_features" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="true" label="Make feature names unique" help="(unique.features)"/> 243 <param name="unique_features" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="true" label="Make feature names unique" help="(unique.features)"/>
244 <param name="strip_suffix" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="false" label="Remove trailing -1 if present in all cell barcodes" help="(strip.suffix)"/> 244 <param name="strip_suffix" type="boolean" truevalue="TRUE" falsevalue="FALSE" checked="false" label="Remove trailing -1 if present in all cell barcodes" help="(strip.suffix)"/>
245 </when> 245 </when>