Protein Quantification in Mass Spectrometry-Based Proteomics
Description
An implementation of the MaxLFQ algorithm by
Cox et al. (2014) in a comprehensive
pipeline for processing proteomics data in data-independent acquisition mode
(Pham et al. 2020 ;
Pham et al. 2026 ).
It offers additional options for protein quantification using
the N most intense fragment ions, using all fragment ions,
the median polish algorithm by Tukey (1977, ISBN:0201076160),
and a robust linear model. In general, the tool can be used to integrate
multiple proportional observations into a single quantitative value.