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Pre-processing PTR-TOF-MS Data

Bioconductor version: Release (3.19)

This package implements a suite of methods to preprocess data from PTR-TOF-MS instruments (HDF5 format) and generates the 'sample by features' table of peak intensities in addition to the sample and feature metadata (as a singl

Author: camille Roquencourt [aut, cre]

Maintainer: camille Roquencourt <camille.roquencourt at>

Citation (from within R, enter citation("ptairMS")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

ptaiMS: Processing and analysis of PTR-TOF-MS data HTML R Script
Reference Manual PDF


biocViews Alignment, MassSpectrometry, Metabolomics, PeakDetection, Preprocessing, Software
Version 1.12.0
In Bioconductor since BioC 3.13 (R-4.1) (3 years)
License GPL-3
Imports Biobase, bit64, chron, data.table, doParallel, DT, enviPat, foreach, ggplot2, graphics, grDevices, ggpubr, gridExtra, Hmisc, methods, minpack.lm, MSnbase, parallel, plotly, rhdf5, rlang, Rcpp, shiny, shinyscreenshot, signal, scales, stats, utils
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Suggests knitr, rmarkdown, BiocStyle, testthat (>= 2.1.0), ptairData, ropls
Linking To Rcpp
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Follow Installation instructions to use this package in your R session.

Source Package ptairMS_1.12.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) ptairMS_1.12.0.tgz
macOS Binary (arm64)
Source Repository git clone
Source Repository (Developer Access) git clone
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