metabomxtr: A package to run mixture models for truncated metabolomics data with normal or lognormal distributions
Version 1.10.0

The functions in this package return optimized parameter estimates and log likelihoods for mixture models of truncated data with normal or lognormal distributions.

AuthorMichael Nodzenski, Anna Reisetter, Denise Scholtens
Bioconductor views MassSpectrometry Metabolomics
Date of publicationNone
MaintainerMichael Nodzenski <michael.nodzenski@northwestern.edu>
LicenseGPL-2
Version1.10.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("metabomxtr")

Getting started

Package overview

Popular man pages

addBatchMeans: A function to append batch specific mean metabolite...
addOutlierInfo: A function to determine whether specific metabolite...
anyMissingLevels: A function to determine whether any level of a categorical...
metabomxtr-package: A package to run mixture models on truncated normal or...
metabplot: A function to plot metabolite abundance before and after...
mixnorm: A function to perform per-metabolite batch normalization...
mxtrmodLL: A function to return the negative log-likelihood of mixture...
See all...

All man pages Function index File listing

Man pages

addBatchMeans: A function to append batch specific mean metabolite...
addOutlierInfo: A function to determine whether specific metabolite...
allMissingLevels: A function to determine whether metabolite levels are present...
anyMissingLevels: A function to determine whether any level of a categorical...
euMetabCData: A sample data set of truncated metabolomics data.
euMetabData: A sample data set of truncated metabolomics data.
idMissingLevels: A function to determine the levels of a categorical variable...
metabdata: A sample data set of truncated metabolomics data
metabomxtr-package: A package to run mixture models on truncated normal or...
metabplot: A function to plot metabolite abundance before and after...
mixnorm: A function to perform per-metabolite batch normalization...
mxtrmod: A function to return optimized parameter estimates and the...
mxtrmodLL: A function to return the negative log-likelihood of mixture...
mxtrmodLRT: A function to run likelihood ratio tests on full vs. reduced...
mxtrmodstart: A function to generate starting parameter estimates for the...
removeAllMissingCatVar: A function to remove categorical variables with insufficient...
removeMissingLevels: A function to remove levels of categorical variables with...
runMxtrmod: A function to return optimized parameter estimates and the...
xdesign-methods: ~~ Methods for Function 'xdesign' ~~
yvals-methods: ~~ Methods for Function 'yvals' ~~
zdesign-methods: ~~ Methods for Function 'zdesign' ~~

Functions

addBatchMeans Man page Source code
addOutlierInfo Man page Source code
allMissingLevels Man page Source code
anyMissingLevels Man page Source code
euMetabCData Man page
euMetabData Man page
idMissingLevels Man page Source code
metabdata Man page
metabomxtr Man page
metabomxtr-package Man page
metabplot Man page Source code
mixnorm Man page Source code
mxtrmod Man page Source code
mxtrmodLL Man page Source code
mxtrmodLRT Man page Source code
mxtrmodstart Man page Source code
removeAllMissingCatVar Man page Source code
removeMissingLevels Man page Source code
runMxtrmod Man page Source code
xdesign Man page
xdesign,ExpressionSet-method Man page
xdesign,data.frame-method Man page
xdesign,matrix-method Man page
xdesign-methods Man page
yvals Man page
yvals,ExpressionSet,character-method Man page
yvals,data.frame,character-method Man page
yvals,matrix,character-method Man page
yvals-methods Man page
zdesign Man page
zdesign,ExpressionSet-method Man page
zdesign,data.frame-method Man page
zdesign,matrix-method Man page
zdesign-methods Man page

Files

DESCRIPTION
NAMESPACE
NEWS
R
R/AllGenerics.R
R/addBatchMeans.R
R/addOutlierInfo.R
R/allMissingLevels.R
R/anyMissingLevels.R
R/idMissingLevels.R
R/metabplot.R
R/mixnorm.R
R/mxtrmod.R
R/mxtrmodLL.R
R/mxtrmodLRT.R
R/mxtrmodstart.R
R/removeAllMissingCatVar.R
R/removeMissingLevels.R
R/runMxtrmod.R
R/xdesign-methods.R
R/yvals-methods.R
R/zdesign-methods.R
build
build/vignette.rds
data
data/euMetabCData.rda
data/euMetabData.rda
data/metabdata.RData
inst
inst/doc
inst/doc/Metabomxtr_Vignette.R
inst/doc/Metabomxtr_Vignette.Rnw
inst/doc/Metabomxtr_Vignette.pdf
inst/doc/mixnorm_Vignette.R
inst/doc/mixnorm_Vignette.Rnw
inst/doc/mixnorm_Vignette.pdf
man
man/addBatchMeans.Rd
man/addOutlierInfo.Rd
man/allMissingLevels.Rd
man/anyMissingLevels.Rd
man/euMetabCData.Rd
man/euMetabData.Rd
man/idMissingLevels.Rd
man/metabdata.Rd
man/metabomxtr-package.Rd
man/metabplot.Rd
man/mixnorm.Rd
man/mxtrmod.Rd
man/mxtrmodLL.Rd
man/mxtrmodLRT.Rd
man/mxtrmodstart.Rd
man/removeAllMissingCatVar.Rd
man/removeMissingLevels.Rd
man/runMxtrmod.Rd
man/xdesign-methods.Rd
man/yvals-methods.Rd
man/zdesign-methods.Rd
vignettes
vignettes/Metabomxtr_Vignette.Rnw
vignettes/mixnorm_Vignette.Rnw
metabomxtr documentation built on May 20, 2017, 11 p.m.

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