Package: EGSEAdata 1.41.0

Monther Alhamdoosh

EGSEAdata: Gene set collections for the EGSEA package

This package includes gene set collections that are used for the Ensemble of Gene Set Enrichment Analyses (EGSEA) method for gene set testing. It includes Human and Mouse versions of the MSidDB (Subramanian, et al. (2005) PNAS, 102(43):15545-15550) and GeneSetDB (Araki, et al. (2012) FEBS Open Bio, 2:76-82) collections.

Authors:Monther Alhamdoosh, Yifang Hu and Gordon K. Smyth

EGSEAdata_1.41.0.tar.gz
EGSEAdata_1.41.0.tar.gz(r-4.7-any)EGSEAdata_1.41.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
EGSEAdata/json (API)

# Install 'EGSEAdata' in R:

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

Datasets:

gsetdb.human - GeneSetDB Human Collections
gsetdb.mouse - GeneSetDB Mouse Collections
gsetdb.rat - GeneSetDB Rat Collections
il13.data - Human IL-13 dataset
il13.data.cnt - Human IL-13 dataset - Raw Counts
il13.gsa - EGSEA analysis results on the human IL-13 dataset
kegg.pathways - KEGG Pathways Collections
mam.data - Mouse mammary cell dataset
Mm.c2 - Mouse C2 MSigDB Gene Set Collections
Mm.c3 - Mouse C3 MSigDB Gene Set Collections
Mm.c4 - Mouse C4 MSigDB Gene Set Collections
Mm.c5 - Mouse C5 MSigDB Gene Set Collections
Mm.c6 - Mouse C6 MSigDB Gene Set Collections
Mm.c7 - Mouse C7 MSigDB Gene Set Collections
Mm.H - Mouse H MSigDB Gene Set Collections
msigdb - MSigDB Gene Set Collections

On BioConductor:EGSEAdata-1.41.0(data/experiment 3.24)EGSEAdata-1.40.0(data/experiment 3.23)

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

experimentdata homo_sapiens_data mus_musculus_data rattus_norvegicus_data datapkg

3.72 score 2 packages 44 scripts 1 exports 0 dependencies

Last updated from:f2aaa38412. Checks:1 ERROR, 2 NOTE, 1 OK. Indexed: yes.

This is a data package. Data packages may be large and do not get checked across all platforms.

Target	Result	Time
bioc-checks	ERROR	233
linux-devel	NOTE	348
source / vignettes	OK	549
linux-release	NOTE	329

Exports:egsea.data

Dependencies:

Citation

Development and contributors

Readme and manuals

Help Manual

Help page	Topics
Gene Set Collections for the EGSEA package	EGSEAdata-package EGSEAdata
EGSEAdata databases information	egsea.data
GeneSetDB Human Collections	gsetdb.human
GeneSetDB Mouse Collections	gsetdb.mouse
GeneSetDB Rat Collections	gsetdb.rat
Human IL-13 dataset	il13.data
Human IL-13 dataset - Raw Counts	il13.data.cnt
EGSEA analysis results on the human IL-13 dataset	il13.gsa
KEGG Pathways Collections	kegg.pathways
Mouse mammary cell dataset	mam.data
Mouse C2 MSigDB Gene Set Collections	Mm.c2
Mouse C3 MSigDB Gene Set Collections	Mm.c3
Mouse C4 MSigDB Gene Set Collections	Mm.c4
Mouse C5 MSigDB Gene Set Collections	Mm.c5
Mouse C6 MSigDB Gene Set Collections	Mm.c6
Mouse C7 MSigDB Gene Set Collections	Mm.c7
Mouse H MSigDB Gene Set Collections	Mm.H
MSigDB Gene Set Collections	msigdb