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erah (version 1.1.2)

Automated Spectral Deconvolution, Alignment, and Metabolite Identification in GC/MS-Based Untargeted Metabolomics

Description

Automated compound deconvolution, alignment across samples, and identification of metabolites by spectral library matching in Gas Chromatography - Mass spectrometry (GC-MS) untargeted metabolomics. Outputs a table with compound names, matching scores and the integrated area of the compound for each sample. Package implementation is described in Domingo-Almenara et al. (2016) .

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Version

Install

install.packages('erah')

Monthly Downloads

257

Version

1.1.2

License

GPL (>= 2)

Maintainer

Xavier Domingo-Almenara

Last Published

May 11th, 2021

Functions in erah (1.1.2)

alignList

Alignment list
MetaboSet-class

Class "MetaboSet"
newExp

New Experiment
export2CEF

Export spectra to CEF
expClasses

Experiment classes
export2MSP

Export spectra to MSP
plotChr

Plotting sample chromatogram
plotAlign

Plotting chromatophic profile with and without alignement
idList

Identification list
identifyComp

Identification of compounds
findComp

Find a Compound
setAlPar

Set Alignment Parameters
recMissComp

Missing compound recovery
metaData

Metadata
RawDataParameters-class

Class "RawDataParameters"
setDecPar

Set Software Parameters
importGMD

Import MSP files from GMD to R
plotProfile

Plotting chromatophic profile
mslib

MassBank Spectral Library
plotSpectra

Plotting spectra
sampleInfo

Information of the samples
phenoData

Show Phenotyphe data
importMSP

Import MSP files to R
show.MetaboSet

Show MetaboSet object
createdt

Creating Experiment Tables
computeRIerror

Retention Index Error Computation
alignComp

Alignment of compounds
deconvolveComp

Deconvolution of compounds in samples
compInfo

Information of a Compound
eRah_DB-class

Class "eRah_DB"
dataList

Data list