iq: 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) <doi:10.1074/mcp.M113.031591> in a complete pipeline for processing proteomics data in data-independent acquisition mode. 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).

Version: 1.3
Depends: R (≥ 2.10)
Suggests: knitr, rmarkdown
Published: 2020-01-07
Author: Thang Pham ORCID iD [aut, cre, cph, ctb], Alex Henneman ORCID iD [ctb]
Maintainer: Thang Pham <t.pham at>
License: BSD_3_clause + file LICENSE
NeedsCompilation: no
CRAN checks: iq results


Reference manual: iq.pdf
Vignettes: iq: an R package to estimate relative protein abundances from ion quantification in DIA-MS-based proteomics
Package source: iq_1.3.tar.gz
Windows binaries: r-devel:, r-devel-gcc8:, r-release:, r-oldrel:
OS X binaries: r-release: iq_1.3.tgz, r-oldrel: iq_1.3.tgz
Old sources: iq archive


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