MSstatsTMT: MSstatsTMT: A package for protein significance analysis in...

In Vitek-Lab/MSstatsTMT: Protein Significance Analysis in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling

MSstatsTMT: A package for protein significance analysis in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling

Description

A set of tools for detecting differentially abundant peptides and proteins in shotgun mass spectrometry-based proteomic experiments with tandem mass tag (TMT) labeling.

functions

• PDtoMSstatsTMTFormat : generates MSstatsTMT required input format for Proteome discoverer output.

• MaxQtoMSstatsTMTFormat : generates MSstatsTMT required input format for MaxQuant output.

• SpectroMinetoMSstatsTMTFormat : generates MSstatsTMT required input format for SpectroMine output.

• OpenMStoMSstatsTMTFormat : generates MSstatsTMT required input format for OpenMS output.

• proteinSummarization : summarizes PSM level quantification to protein level quantification.

• dataProcessPlotsTMT : visualizes for explanatory data analysis.

• groupComparisonTMT : tests for significant changes in protein abundance across conditions.

Author(s)

Maintainer: Devon Kohler [e-mail]

Authors:

• Ting Huang [e-mail]

• Meena Choi [e-mail]

• Mateusz Staniak [e-mail]

• Sicheng Hao [e-mail]

• Olga Vitek [e-mail]

See Also

Useful links:

• http://msstats.org/msstatstmt/

• Report bugs at https://groups.google.com/forum/#!forum/msstats

Vitek-Lab/MSstatsTMT documentation built on Nov. 18, 2024, 11:30 a.m.