KEGGdzPathwaysGEO
This is the released version of KEGGdzPathwaysGEO; for the devel version, see KEGGdzPathwaysGEO.
KEGG Disease Datasets from GEO
Bioconductor version: Release (3.23)
This is a collection of 24 data sets for which the phenotype is a disease with a corresponding pathway in the KEGG database.This collection of datasets were used as gold standard in comparing gene set analysis methods by the PADOG package.
Author: Gaurav Bhatti, Adi L. Tarca
Maintainer: Gaurav Bhatti <gbhatti at med.wayne.edu>
citation("KEGGdzPathwaysGEO")):
Huber W, Carey VJ, Gentleman R, Anders S, Carlson M, Carvalho BS, Bravo HC, Davis S, Gatto L, Girke T, Gottardo R, Hahne F, Hansen KD, Irizarry RA, Lawrence M, Love MI, MacDonald J, Obenchain V, Oleś AK, Pagès H, Reyes A, Shannon P, Smyth GK, Tenenbaum D, Waldron L, Morgan M (2015). "Orchestrating high-throughput genomic analysis with Bioconductor." Nature Methods, 12(2), 115–121. doi:10.1038/nmeth.3252.
Gentleman RC, Carey VJ, Bates DM, Bolstad B, Dettling M, Dudoit S, Ellis B, Gautier L, Ge Y, Gentry J, Hornik K, Hothorn T, Huber W, Iacus S, Irizarry R, Leisch F, Li C, Maechler M, Rossini AJ, Sawitzki G, Smith C, Smyth G, Tierney L, Yang JYH, Zhang J (2004). "Bioconductor: open software development for computational biology and bioinformatics." Genome Biology, 5(10), R80. doi:10.1186/gb-2004-5-10-r80.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("KEGGdzPathwaysGEO")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
| Reference Manual |
Details
| biocViews | ExperimentData, GEO, MicroarrayData |
| Version | 1.50.0 |
| License | GPL-2 |
| Depends | R (>= 2.13.0) |
| Imports | Biobase, BiocGenerics |
| System Requirements | |
| URL |
See More
| Suggests | |
| Linking To | |
| Enhances | |
| Depends On Me | PADOG |
| Imports Me | GSEABenchmarkeR |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | KEGGdzPathwaysGEO_1.50.0.tar.gz |
| Windows Binary (x86_64) | |
| macOS Binary (big-sur-x86_64) | |
| macOS Binary (sonoma-arm64) | |
| Source Repository | git clone https://git.bioconductor.org/packages/KEGGdzPathwaysGEO |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/KEGGdzPathwaysGEO |
| Package Short Url | https://bioconductor.org/packages/KEGGdzPathwaysGEO/ |
| Package Downloads Report | Download Stats |