promor

CRANpromorMaRDI QIDQ80937

Proteomics Data Analysis and Modeling Tools

Chathurani Ranathunge

Last update: 17 July 2023

Copyright license: GNU Lesser General Public License, version 2.1, GNU Lesser General Public License, version 3.0

Software version identifier: 0.2.0, 0.1.0, 0.1.1, 0.2.1

Description

A comprehensive, user-friendly package for label-free proteomics data analysis and machine learning-based modeling. Data generated from 'MaxQuant' can be easily used to conduct differential expression analysis, build predictive models with top protein candidates, and assess model performance. promor includes a suite of tools for quality control, visualization, missing data imputation (Lazar et. al. (2016) <doi:10.1021/acs.jproteome.5b00981>), differential expression analysis (Ritchie et. al. (2015) <doi:10.1093/nar/gkv007>), and machine learning-based modeling (Kuhn (2008) <doi:10.18637/jss.v028.i05>).

Cites work

• Accounting for the Multiple Natures of Missing Values in Label-Free Quantitative Proteomics Data Sets to Compare Imputation Strategies
• limma powers differential expression analyses for RNA-sequencing and microarray studies
• Building Predictive Models in R Using the caret Package

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