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iq  

Protein Quantification in Mass Spectrometry-Based Proteomics
View on CRAN: Click here


Download and install iq package within the R console
Install from CRAN:
install.packages("iq")

Install from Github:
library("remotes")
install_github("cran/iq")

Install by package version:
library("remotes")
install_version("iq", "2.0.0")



Attach the package and use:
library("iq")
Maintained by
Thang Pham
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2019-11-15
Latest Update: 2024-12-04
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 ). 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). In general, the tool can be used to integrate multiple proportional observations into a single quantitative value.
How to cite:
Thang Pham (2019). iq: Protein Quantification in Mass Spectrometry-Based Proteomics. R package version 2.0.0, https://cran.r-project.org/web/packages/iq. Accessed 27 Aug. 2026.
Previous versions and publish date:
(2026-07-09 07:50), 1.0 (2019-11-15 13:10), 1.1 (2019-11-16 00:20), 1.3 (2020-01-07 19:10), 1.4 (2020-04-27 02:50), 1.5 (2020-05-18 20:30), 1.7 (2020-05-27 00:10), 1.8 (2020-06-14 17:20), 1.9.1 (2021-09-15 08:40), 1.9.3 (2022-04-02 01:40), 1.9.6 (2022-04-27 00:00), 1.9.7 (2023-01-06 14:40), 1.9.9 (2023-02-27 09:22), 1.9.10 (2023-03-29 13:40), 1.9.12 (2023-12-06 22:20), 1.9 (2020-06-27 14:40), 1.10.1 (2024-12-04 14:30), 1.10 (2024-12-03 09:00), 2.0.0 (2025-10-06 09:30)
Other packages that cited iq R package
View iq citation profile
Other R packages that iq depends, imports, suggests or enhances
Complete documentation for iq
Functions, R codes and Examples using the iq R package
Some associated functions: create_protein_list . create_protein_table . extract_annotation . fast_MaxLFQ . fast_preprocess . fast_read . maxLFQ . meanInt . median_polish . plot_protein . preprocess . process_long_format . process_wide_format . spikeins . topN . 
Some associated R codes: iq-fast.R . iq.R .  Full iq package functions and examples
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