MSstats
Protein Significance Analysis in DDA, SRM and DIA for Label-free or Label-based Proteomics Experiments
Bioconductor version: 3.24 · Package version: 4.21.1
A set of tools for statistical relative protein significance analysis in DDA, SRM and DIA experiments.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("MSstats")Details
| Maintainer | Meena Choi <mnchoi67@gmail.com> |
| Author | Meena Choi [aut, cre], Mateusz Staniak [aut], Devon Kohler [aut], Tony Wu [aut], Deril Raju [aut], Tsung-Heng Tsai [aut], Ting Huang [aut], Olga Vitek [aut] |
| License | Artistic-2.0 |
| URL | http://msstats.org |
| Bug Reports | https://groups.google.com/forum/#!forum/msstats |
| Downloads rank | 1206 |
| Source branch | devel |
| biocViews | ImmunoOncology, MassSpectrometry, Normalization, Proteomics, QualityControl, Software, TimeCourse |
Documentation
- MSstats: End to End Workflow
- MSstats: Metabolomics workflow with MZMine
- MSstats: Protein/Peptide significance analysis
- MSstats+: Peak quality-weighted differential analysis
Download
Follow the installation instructions to use this package in your R session.
| Source package | MSstats_4.21.1.tar.gz |
| Windows binary (x86_64) | MSstats_4.21.1.zip |
| macOS binary (arm64) | MSstats_4.21.1.tgz |
| macOS binary (x86_64) | MSstats_4.21.1.tgz |
Dependencies
Depends: R (>= 4.0)
Imports: MSstatsConvert, data.table, checkmate, MASS, htmltools, limma, lme4, preprocessCore, survival, utils, Rcpp, ggplot2 (>= 3.4.0), ggrepel, gplots, plotly, marray, stats, grDevices, graphics, methods, statmod, parallel, rlang
LinkingTo: Rcpp, RcppArmadillo
Suggests: BiocStyle, knitr, rmarkdown, tinytest, covr, markdown, mockery, kableExtra
Reverse dependencies
Depends On Me (1): MSstatsBioNet
Imports Me (6): artMS, MSstatsBig, MSstatsLiP, MSstatsPTM, MSstatsShiny, MSstatsTMT
Suggests Me (1): MSstatsResponse