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ASICS

Automatic Statistical Identification in Complex Spectra


Bioconductor version: Release (3.18)

With a set of pure metabolite reference spectra, ASICS quantifies concentration of metabolites in a complex spectrum. The identification of metabolites is performed by fitting a mixture model to the spectra of the library with a sparse penalty. The method and its statistical properties are described in Tardivel et al. (2017) .

Author: Gaëlle Lefort [aut, cre], Rémi Servien [aut], Patrick Tardivel [aut], Nathalie Vialaneix [aut]

Maintainer: Gaëlle Lefort <gaelle.lefort at inrae.fr>

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

Installation

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


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

BiocManager::install("ASICS")

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("ASICS")
ASICS HTML R Script
ASICS HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews Cheminformatics, DataImport, Metabolomics, Software
Version 2.18.0
In Bioconductor since BioC 3.7 (R-3.5) (6 years)
License GPL (>= 2)
Depends R (>= 3.5)
Imports BiocParallel, ggplot2, glmnet, grDevices, gridExtra, methods, mvtnorm, PepsNMR, plyr, quadprog, ropls, stats, SummarizedExperiment, utils, Matrix, zoo
System Requirements
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Suggests knitr, rmarkdown, BiocStyle, testthat, ASICSdata
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Package Archives

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

Source Package ASICS_2.18.0.tar.gz
Windows Binary ASICS_2.18.0.zip
macOS Binary (x86_64) ASICS_2.18.0.tgz
macOS Binary (arm64) ASICS_2.18.0.tgz
Source Repository git clone https://git.bioconductor.org/packages/ASICS
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/ASICS
Bioc Package Browser https://code.bioconductor.org/browse/ASICS/
Package Short Url https://bioconductor.org/packages/ASICS/
Package Downloads Report Download Stats