Package: RTopper 1.58.0

Luigi Marchionni

RTopper: This package is designed to perform Gene Set Analysis across multiple genomic platforms

the RTopper package is designed to perform and integrate gene set enrichment results across multiple genomic platforms.

Authors:Luigi Marchionni <[email protected]>, Svitlana Tyekucheva <[email protected]>

# Install 'RTopper' in R:

install.packages('RTopper', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org'))

Datasets:

dat - A test dataset for the RTopper package
fgsList - A list of Functional Gene Set (FGS) to be used to run the examples in the RTopper package
gseResultsSep - A list of separated gene set enrichment p-values to be used to run the examples in the RTopper package
intScores - A list of genomic scores integrated across distinct data sets to be used to run the examples in the RTopper package
pheno - A test dataset for the RTopper package
sepScores - A list of separate gene-to-phenotype association scores, obtained indipendently for each distinct data set to be used to run the examples in the RTopper package

On BioConductor:RTopper-1.59.0(bioc 3.24)RTopper-1.58.0(bioc 3.23)

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

Last updated from:984889152e (on RELEASE_3_23). Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: no.

Target	Result	Time
bioc-checks	ERROR	201
linux-devel-x86_64	NOTE	193
source / vignettes	OK	235
linux-release-x86_64	NOTE	232
macos-release-arm64	NOTE	192
macos-oldrel-arm64	NOTE	110
windows-devel	NOTE	404
windows-release	NOTE	342
windows-oldrel	NOTE	373
wasm-release	OK	127

Last update: 2022-11-04
Started: 2013-11-01

Help page	Topics
A package to perform run Gene Set Enrichment across genomic platforms	RTopper-package RTopper
Multiple testing correction	adjustPvalGSE
Combines GSE results	combineGSE
Computes gene-to-phenotype associations scores	computeDrStat
Converts genomic data to a list suitable for computing gene-to-phenotype scores	convertToDr
A test dataset for the RTopper package	dat
A list of Functional Gene Set (FGS) to be used to run the examples in the RTopper package	fgsList
A list of separated gene set enrichment p-values to be used to run the examples in the RTopper package	gseResultsSep
A list of genomic scores integrated across distinct data sets to be used to run the examples in the RTopper package	intScores
A test dataset for the RTopper package	pheno
To perform GSE analysis over multipple experiments and functional themes	runBatchGSE
A list of separate gene-to-phenotype association scores, obtained indipendently for each distinct data set to be used to run the examples in the RTopper package	sepScores