Mercurial > repos > nicolas > oghma
view prediction.xml @ 103:e7115e44d8d8 draft default tip
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author | nicolas |
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date | Mon, 31 Oct 2016 07:20:49 -0400 |
parents | 6a75b93ba5f2 |
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<tool id="prediction" name="prediction" version="1.0.0"> <description>use machine learning model to predict phenotype from genotype</description> <command interpreter="Rscript"> prediction.R $config > ${output1} </command> <inputs> <param name="genotype" type="data" label="genotype data" help="genotype must be a .rda file containing a R dataframe/matrix called /encoded/ " /> <param name="model" type="data" label="classifier model" help="model created by one of the classifier tool of the OGHMA suite. Represented as a .rda file, containing a dataframe called /model/" /> <!-- deprecated <param name="name" type="text" label="names" help=" prefixe given to all results of the evaluation in the output folder (see -o option) to distinguish them" /> <param name="outputPath" type="data" label="path to the output folds" help= " a path to a FOLDER where the results will be writen" /> --> </inputs> <configfiles> <configfile name="config"> ## Desc: this file is sourced in encode wrapper script ## as means to pass all galaxy params to R "${genotype}" -> genotype "${model}" -> model "${output1}" -> out </configfile> </configfiles> <outputs> <data format="tabular" name = "output1" label="classifier prediction" /> </outputs> <help> Use model designed by any clasifier tool from the OGHMA suite to predict the phenotype of a dataset provided as input. results are stored in a folder under a .rda file </help> </tool>