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SIMAT

GC-SIM-MS data processing and alaysis tool


Bioconductor version: Release (3.18)

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 vt.edu>

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

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

Installation

To install this package, start R (version "4.3") and enter:


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

BiocManager::install("SIMAT")

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

Documentation

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

browseVignettes("SIMAT")
SIMAT Usage PDF R Script
Reference Manual PDF
NEWS Text

Details

biocViews ImmunoOncology, MassSpectrometry, Metabolomics, Software
Version 1.34.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License GPL-2
Depends R (>= 3.5.0), Rcpp (>= 0.11.3)
Imports mzR, ggplot2, grid, reshape2, grDevices, stats, utils
System Requirements
URL http://omics.georgetown.edu/SIMAT.html
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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package SIMAT_1.34.0.tar.gz
Windows Binary SIMAT_1.34.0.zip
macOS Binary (x86_64) SIMAT_1.34.0.tgz
macOS Binary (arm64) SIMAT_1.34.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SIMAT
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SIMAT
Bioc Package Browser https://code.bioconductor.org/browse/SIMAT/
Package Short Url https://bioconductor.org/packages/SIMAT/
Package Downloads Report Download Stats