Package: proBatch
Type: Package
Title: Tools for Diagnostics and Corrections of Batch Effects in
        Proteomics
Version: 1.14.0
Author: Jelena Cuklina <chuklina.jelena@gmail.com>, Chloe H. Lee <chloe.h.lee94@gmail.com>, Patrick Pedrioli <pedrioli@gmail.com>
Maintainer: Chloe H. Lee <chloe.h.lee94@gmail.com>
Description: These tools facilitate batch effects analysis and correction in 
  high-throughput experiments. It was developed primarily for mass-spectrometry proteomics (DIA/SWATH), 
  but could also be applicable to most omic data with minor adaptations. The package contains functions 
  for diagnostics (proteome/genome-wide and feature-level), correction (normalization and batch effects 
  correction) and quality control. Non-linear fitting based approaches were also included to deal with 
  complex, mass spectrometry-specific signal drifts.
biocViews: BatchEffect, Normalization, Preprocessing, Software,
        MassSpectrometry,Proteomics, QualityControl
License: GPL-3
URL: https://github.com/symbioticMe/proBatch
BugReports: https://github.com/symbioticMe/proBatch/issues
Depends: R (>= 3.6)
Encoding: UTF-8
LazyData: true
Imports: Biobase, corrplot, dplyr, data.table, ggfortify, ggplot2,
        grDevices, lazyeval, lubridate, magrittr, pheatmap,
        preprocessCore, purrr, pvca, RColorBrewer, reshape2, rlang,
        scales, stats, sva, tidyr, tibble, tools, utils, viridis,
        wesanderson, WGCNA
Suggests: knitr, rmarkdown, devtools, ggpubr, gtable, gridExtra,
        roxygen2, testthat (>= 2.1.0), spelling
VignetteBuilder: knitr
RoxygenNote: 7.1.0
Language: en-US
git_url: https://git.bioconductor.org/packages/proBatch
git_branch: RELEASE_3_16
git_last_commit: f5abbc9
git_last_commit_date: 2022-11-01
Date/Publication: 2023-03-20
NeedsCompilation: no
Packaged: 2023-03-20 22:01:21 UTC; biocbuild
Built: R 4.6.1; ; 2026-08-13 18:34:05 UTC; unix
