Mercurial > repos > ebi-gxa > scpred_eigen_decompose
diff scpred_eigen_decomp.xml @ 0:c6fd7cbaf247 draft
"planemo upload for repository https://github.com/ebi-gene-expression-group/container-galaxy-sc-tertiary/ commit 6ea13bbd7294b94201a5d776307b3f0742847db1"
author | ebi-gxa |
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date | Wed, 08 Apr 2020 06:25:22 -0400 |
parents | |
children | 3867289e6c1a |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/scpred_eigen_decomp.xml Wed Apr 08 06:25:22 2020 -0400 @@ -0,0 +1,31 @@ +<tool id="scpred_eigen_decompose" name="Scpred eigen-decompose" version="@TOOL_VERSION@+galaxy0" profile="@PROFILE@"> + <description>Perform matrix eigen-decomposition; initialize object of scPred class</description> + <macros> + <import>scpred_macros.xml</import> + </macros> + <expand macro="requirements" /> + <command detect_errors="exit_code"><![CDATA[ + scpred_eigen_decomp.R --training-matrix "${training_matrix}" --log-transform "${log_transform}" --training-labels "${training_labels}" --principal-comps "${principal_components}" --output-path "${output_object_path}" ]]></command> + <inputs> + <param type="data" name="training_matrix" label="Training matrix" format="rdata" help="Training matrix obtained from train/test split step" /> + <param type="boolean" name="log_transform" label="log-transform" checked="True" help="Should log-transform be performed on training data?" /> + <param type="data" name="training_labels" label="training labels file" format="txt" help="Path to training labels in text format" /> + <param type="integer" name="principal_components" label="Number of pincipal components" value="10" help="Number of principal components" /> + </inputs> + <outputs> + <data name="output_object_path" format="rdata" /> + </outputs> + <tests> + <test> + <param name="training_matrix" value="train_matrix.mtx" /> + <param name="training_labels" value="train_metadata.txt" /> + <output name="output_object_path" file="scPred_object.rds" compare="sim_size" /> + </test> + </tests> + <help><![CDATA[ + @HELP@ + + @VERSION_HISTORY@ + ]]></help> + <expand macro="citations" /> +</tool>