Package: DEqMS
Version: 1.31.0
Date: 2025/05/10
Title: a tool to perform statistical analysis of differential protein
        expression for quantitative proteomics data.
Author: Yafeng Zhu
Maintainer: Yafeng Zhu <yafeng.zhu@outlook.com>
Depends: R(>= 3.5),graphics,stats,ggplot2,matrixStats,dplyr,limma(>=
        3.34)
Suggests:
        BiocStyle,knitr,rmarkdown,markdown,plyr,reshape2,utils,ggrepel,ExperimentHub,LSD
LazyLoad: yes
Description: DEqMS is developped on top of Limma. However, Limma
        assumes same prior variance for all genes. In proteomics, the
        accuracy of protein abundance estimates varies by the number of
        peptides/PSMs quantified in both label-free and labelled data.
        Proteins quantification by multiple peptides or PSMs are more
        accurate. DEqMS package is able to estimate different prior
        variances for proteins quantified by different number of
        PSMs/peptides, therefore acchieving better accuracy. The
        package can be applied to analyze both label-free and labelled
        proteomics data.
License: LGPL
biocViews: ImmunoOncology, Proteomics, MassSpectrometry, Preprocessing,
        DifferentialExpression,
        MultipleComparison,Normalization,Bayesian,ExperimentHubSoftware
VignetteBuilder: knitr
Packaged: 2026-07-05 01:52:29 UTC; root
BugReports: https://github.com/yafeng/DEqMS/issues
Repository: https://bioc.r-universe.dev
Date/Publication: 2026-04-28 12:48:40 UTC
RemoteUrl: https://github.com/bioc/DEqMS
RemoteRef: HEAD
RemoteSha: fcec1ed7d05159dd822367a3adeab34193e32e8c
NeedsCompilation: no