SIMAT

This package is for version 3.6 of Bioconductor; for the stable, up-to-date release version, see SIMAT.

GC-SIM-MS data processing and alaysis tool


Bioconductor version: 3.6

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: Mo R. Nezami Ranjbar <nranjbar at vt.edu>

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

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

Installation

To install this package, start R (version "3.4") 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 MassSpectrometry, Metabolomics, Software
Version 1.10.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License GPL-2
Depends R (>= 3.4.0), Rcpp (>= 0.11.3)
Imports mzR, ggplot2, grid, reshape2
System Requirements
URL http://omics.georgetown.edu/SIMAT.html
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Suggests RUnit, BiocGenerics
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Package Archives

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

Source Package SIMAT_1.10.0.tar.gz
Windows Binary SIMAT_1.10.0.zip
Mac OS X 10.11 (El Capitan) SIMAT_1.10.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/SIMAT
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/SIMAT
Package Short Url https://bioconductor.org/packages/SIMAT/
Package Downloads Report Download Stats
Old Source Packages for BioC 3.6 Source Archive