MLP: MLP
Version 1.24.0

Mean Log P Analysis

Browse man pages Browse package API and functions Browse package files

AuthorNandini Raghavan, Tobias Verbeke, An De Bondt with contributions by Javier Cabrera, Dhammika Amaratunga, Tine Casneuf and Willem Ligtenberg
Bioconductor views Genetics KEGG Reactome
Date of publicationNone
MaintainerTobias Verbeke <tobias.verbeke@openanalytics.eu>
LicenseGPL-3
Version1.24.0
Package repositoryView on Bioconductor
InstallationInstall the latest version of this package by entering the following in R:
source("https://bioconductor.org/biocLite.R")
biocLite("MLP")

Man pages

addGeneSetDescription: Utility function which adds the biological description of the...
getGeneSets: Prepare Pathway Data for the MLP Function
MLP: This function calculates p-values for each gene set based on...
mlpBarplot: Draw a Barplot for MLP Results
plotGeneSetSignificance: Plot the Significance for the Genes of a Given Gene Set
plotGOgraph: Graphical Representation of GO Based MLP Results
plot.MLP: Plot the Results of an MLP Run

Functions

MLP Man page Source code
addGeneSetDescription Man page Source code
computeMLP Source code
csort Source code
ctpval1 Source code
getGeneSets Man page Source code
getIndividualPValues Source code
getSmoothedPValues Source code
mapGeneSetStatistic Source code
mlpBarplot Man page Source code
mlpStatistic Source code
permk Source code
permtwo Source code
plot.MLP Man page Source code
plotGOgraph Man page Source code
plotGeneSetSignificance Man page Source code
plotQuantileCurves Source code
pp2g Source code
quantileCurves Source code
smdecreasing1 Source code

Files

DESCRIPTION
NAMESPACE
R
R/MLP.R
R/addGeneSetDescription.R
R/getGeneSets.R
R/mlpBarplot.R
R/plot.MLP.R
R/plotGOgraph.R
R/plotGeneSetSignificance.R
R/plotQuantileCurves.R
R/utils.R
build
build/vignette.rds
inst
inst/NEWS
inst/doc
inst/doc/UsingMLP.R
inst/doc/UsingMLP.Rnw
inst/doc/UsingMLP.pdf
inst/exampleFiles
inst/exampleFiles/exampleGeneSet.rda
inst/exampleFiles/exampleMLPResult.rda
inst/exampleFiles/examplePValues.rda
inst/exampleFiles/expressionSetGcrma.rda
inst/scripts
inst/scripts/generateExampleFiles.R
man
man/MLP.Rd
man/addGeneSetDescription.Rd
man/getGeneSets.Rd
man/mlpBarplot.Rd
man/plot.MLP.Rd
man/plotGOgraph.Rd
man/plotGeneSetSignificance.Rd
tests
tests/test.MLP.R
vignettes
vignettes/UsingMLP.Rnw
MLP documentation built on May 20, 2017, 10:49 p.m.