A repository and community where users can share and discuss their own GenePattern modules.
Apply a Gating-ML 2.0 file on an FCS data file (gate and/or transform list mode data)
Generate .cls file(s) from a hierarchical clustering result. This works on R-2.5. For another version, clone it and edit <R2.5> in Command field.
Compute detection p-values for gene-expression microarray data. If you need to specify R, clone it and modify Command Line <R> like <R2.5> to match your version.
Clean up an FCS file by marking events affected by problems during data acquisition
Format a GCT file to be readable by the Integrative Genome Viewer (IGV).
Apply a log base 2 transformation to data from a GCT file.
Apply a (quantile, scale, or Znorm) normalization on a GCT file.
Reorder a GCT by sorting on a property such as the gene symbol, average expression level, sum and variance
TCGA.Merge - version 1
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