Mercurial > repos > ning > ebseq
view GetNormalizedExpression.xml @ 15:58bb88f53765 draft
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author | ning |
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date | Fri, 15 Mar 2013 18:23:57 -0400 |
parents | e42c12a40df6 |
children | 3eb0e0d10f36 |
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<tool id="Get_Normalized_Expressions" name="Get Normalized Expressions"> <description>Calculate normalization factors and get the normalized expression matrix</description> <command>R --quiet --slave --file=$GALAXY_ROOT_DIR/tools/EBSeq/GetNormalizedExpression.R --args $Gene_Expression $First_Row_Sample_Names $output $Boxplots $Sizes </command> <inputs> <param name="Gene_Expression" type="data" format="tabular" label="Gene Expression (tab eliminated)"/> <param name="First_Row_Sample_Names" type="select" format="text"> <label>The First Row is Sample Names?</label> <option value="y">Yes</option> <option value="n">No</option> </param> </inputs> <outputs> <data format="tabular" name="output" /> <data format="pdf" name="Boxplots" /> <data format="tabular" name="Sizes" /> </outputs> <help> The function would provide the normalized expression values (normalized by the library size factors) and estimated library size factors. A boxplot for checking will also be generated. </help> </tool>