proBatch

Tools for Diagnostics and Corrections of Batch Effects in Proteomics

Bioconductor version: 3.23 · Package version: 2.0.0

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.

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("proBatch")