GenePattern

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Modules in the repository can be installed on a local GenePattern server. Most of these modules are also installed on the public GenePattern server.

Name	Type	Availability
ESPPredictor Determine which tryptic peptides will generate the highest signal in ESI-MS Version: 1	Proteomics	* Public Server Only
QuaSAR A suite of tools for QC, analysis and visualization of data from MRM-MS experiments including assay configuration, calibration curves and new sample analysis. Version: 1	Proteomics	* Public Server Only
AreaChange Calculates fraction of area under the spectrum that is attributable to signal (area after noise removal / original area) Version: 2	Proteomics	Module Repository
AuDIT Automated Detection of Inaccurate and Imprecise Transitions in MRM Mass Spectrometry Version: 6	Proteomics	Module Repository
CompareSpectra Compares two spectra to determine similarity Version: 3	Proteomics	Module Repository
LandmarkMatch A proteomics method to propogate identifed peptides across multiple MS runs Version: 2	Proteomics	Module Repository
LocatePeaks Locates detected peaks in a spectrum. Version: 2	Proteomics	Module Repository
mzXMLToCsv Converts a mzXML file to a zip of csv files Version: 1	Proteomics	Module Repository
PeakMatch Perform peak matching on LC-MS data Version: 2	Proteomics	Module Repository
Peaks Determine peaks in the spectrum using a series of digital filters. Version: 2	Proteomics	Module Repository
PlotPeaks Plot peaks Version: 2	Proteomics	Module Repository
ProteoArray LC-MS proteomic data processing module Version: 1	Proteomics	Module Repository
ProteomicsAnalysis Runs the proteomics analysis on the set of input spectra Version: 2	Proteomics	Module Repository
QuaSAR A suite of tools for QC, analysis and visualization of data from MRM-MS experiments including assay configuration, calibration curves and new sample analysis. Version: 1	Proteomics	Module Repository

GenePattern Modules