Protein Quantification in Mass Spectrometry-Based Proteomics

An implementation of the maximal peptide ratio extraction module of the MaxLFQ algorithm by Cox et al. (2014) in a complete pipeline for processing proteomics data in data-independent acquisition mode (Pham et al. 2020 ). It offers additional options for protein quantification using the N most intense fragment ions, using all fragment ions, and a wrapper for the median polish algorithm by Tukey (1977, ISBN:0201076160).


Reference manual

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1.9 by Thang Pham, 15 days ago

Browse source code at

Authors: Thang Pham [aut, cre, cph, ctb] , Alex Henneman [ctb]

Documentation:   PDF Manual  

BSD_3_clause + file LICENSE license

Suggests knitr, rmarkdown

See at CRAN