PTM-SEA for use with PTMsigDB

Visualizes prediction results in JavaScript

A downstream visualization and analysis tool for gene set enrichment results with interactive web visualizer.

Scatterplot visualization tool for analyzing differential gene expression.

Remove samples in dataset (.gct), using a list of samples provided

Maps reagents in a gct data file to genes based on a mapping file.

Calculate the fold change of each sample in a gct file, based on the appropriate DNA reference value (present in a gct file of the same dimension).

Runs ATARiS on RNAi reagent-level data.

Removes reagents with low read counts in original DNA plasmid pool. Outputs a GCT file containing filtered reagent data and a GCT file containing the mean read count for each reagent in the original DNA plasmid pool.