Mercurial > repos > ebi-gxa > scmap_select_features

comparison scmap_select_features.xml @ 9:91f29745bda6 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 8350493268ce3ced12b1133b9b0f734a288deb75
author ebi-gxa
date Tue, 23 Apr 2024 07:48:52 +0000
parents e5aaa5bea06a
children
comparison
equal deleted inserted replaced
8:e5aaa5bea06a 9:91f29745bda6
3 <macros> 3 <macros>
4 <import>scmap_macros.xml</import> 4 <import>scmap_macros.xml</import>
5 </macros> 5 </macros>
6 <expand macro="requirements" /> 6 <expand macro="requirements" />
7 <command detect_errors="exit_code"><![CDATA[ 7 <command detect_errors="exit_code"><![CDATA[
8 scmap-preprocess-sce.R --input-object "${input_single_cell_experiment}" --output-sce-object "${input_single_cell_experiment}.preprocessed" && scmap-select-features.R --input-object-file "${input_single_cell_experiment}.preprocessed" --n-features '$n_features' --output-object-file '$output_single_cell_experiment' --output-plot-file '$plot' 8 scmap-preprocess-sce.R
9 --input-object "${input_single_cell_experiment}"
10 --output-sce-object "result.preprocessed" &&
11 scmap-select-features.R
12 --input-object-file "result.preprocessed"
13 --n-features '$n_features'
14 --output-object-file '$output_single_cell_experiment'
15 --output-plot-file '$plot'
9 ]]></command> 16 ]]></command>
10 <inputs> 17 <inputs>
11 <param type="data" name="input_single_cell_experiment" label="SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object" /> 18 <param type="data" name="input_single_cell_experiment" label="SingleCellExperiment object" format="rdata" help="File with serialized SingleCellExperiment object" />
12 <param name="n_features" type="integer" label="Number of features" value="500" help="Number of features to be selected" /> 19 <param name="n_features" type="integer" label="Number of features" value="500" help="Number of features to be selected" />
13 </inputs> 20 </inputs>