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GC-SIM-MS data processing and alaysis tool

Bioconductor version: Release (3.19)

This package provides a pipeline for analysis of GC-MS data acquired in selected ion monitoring (SIM) mode. The tool also provides a guidance in choosing appropriate fragments for the targets of interest by using an optimization algorithm. This is done by considering overlapping peaks from a provided library by the user.

Author: M. R. Nezami Ranjbar <nranjbar at>

Maintainer: M. R. Nezami Ranjbar <nranjbar at>

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


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:

SIMAT Usage PDF R Script
Reference Manual PDF


biocViews ImmunoOncology, MassSpectrometry, Metabolomics, Software
Version 1.36.0
In Bioconductor since BioC 3.1 (R-3.2) (9.5 years)
License GPL-2
Depends R (>= 3.5.0), Rcpp (>= 0.11.3)
Imports mzR, ggplot2, grid, reshape2, grDevices, stats, utils
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Suggests RUnit, BiocGenerics
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Follow Installation instructions to use this package in your R session.

Source Package SIMAT_1.36.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) SIMAT_1.36.0.tgz
macOS Binary (arm64) SIMAT_1.36.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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