Package: gageData 2.50.0
Weijun Luo
gageData: Auxillary data for gage package
This is a supportive data package for the software package, gage. However, the data supplied here are also useful for gene set or pathway analysis or microarray data analysis in general. In this package, we provide two demo microarray dataset: GSE16873 (a breast cancer dataset from GEO) and BMP6 (originally published as an demo dataset for GAGE, also registered as GSE13604 in GEO). This package also includes commonly used gene set data based on KEGG pathways and GO terms for major research species, including human, mouse, rat and budding yeast. Mapping data between common gene IDs for budding yeast are also included.
Authors:
gageData_2.50.0.tar.gz
gageData_2.50.0.tar.gz(r-4.7-any)gageData_2.50.0.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
gageData/json (API)
| # Install 'gageData' in R: |
| install.packages('gageData', repos = c('https://bioc-release.r-universe.dev', 'https://cloud.r-project.org')) |
- bmp6 - A microarray dataset on BMP6 treated mesenchymal stem cells
- carta.hs - Common gene set data collections
- go.sets.hs - Common gene set data collections
- go.sets.mm - Common gene set data collections
- go.sets.rn - Common gene set data collections
- go.sets.sc - Common gene set data collections
- go.subs.hs - Common gene set data collections
- go.subs.mm - Common gene set data collections
- go.subs.rn - Common gene set data collections
- go.subs.sc - Common gene set data collections
- gse16873.2 - GSE16873: a breast cancer microarray dataset
- gse16873.affyid - GSE16873: a breast cancer microarray dataset
- gse16873.full - GSE16873: a breast cancer microarray dataset
- hnrnp.cnts - RNA-seq dataset on HNRNPC knockdown and control HeLa cells
- kegg.sets.hs - Common gene set data collections
- kegg.sets.ko - Common gene set data collections
- kegg.sets.mm - Common gene set data collections
- kegg.sets.rn - Common gene set data collections
- kegg.sets.sc - Common gene set data collections
- orf2eg - Common IDs used for budding yeast (Saccharomyces cerevisa) genes
- sc.gene - Common IDs used for budding yeast (Saccharomyces cerevisa) genes
- sigmet.idx.hs - Common gene set data collections
- sigmet.idx.ko - Common gene set data collections
- sigmet.idx.mm - Common gene set data collections
- sigmet.idx.rn - Common gene set data collections
- sigmet.idx.sc - Common gene set data collections
On BioConductor:gageData-2.51.0(data/experiment 3.24)gageData-2.50.0(data/experiment 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
experimentdatastemcellcancerdatabreastcancerdatamicroarraydatageodatapkg
Last updated from:fa81434863 (on RELEASE_3_23). Checks:1 ERROR, 3 OK. Indexed: no.
This is a data package. Data packages may be large and do not get checked across all platforms.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 152 | ||
| linux-devel | OK | 219 | ||
| source / vignettes | OK | 197 | ||
| linux-release | OK | 209 |
Exports:
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| A microarray dataset on BMP6 treated mesenchymal stem cells | bmp6 |
| Common gene set data collections | carta.hs go.sets.hs go.sets.mm go.sets.rn go.sets.sc go.subs.hs go.subs.mm go.subs.rn go.subs.sc kegg.sets.hs kegg.sets.ko kegg.sets.mm kegg.sets.rn kegg.sets.sc sigmet.idx.hs sigmet.idx.ko sigmet.idx.mm sigmet.idx.rn sigmet.idx.sc |
| GSE16873: a breast cancer microarray dataset | gse16873.2 gse16873.affyid gse16873.full |
| RNA-seq dataset on HNRNPC knockdown and control HeLa cells | hnrnp.cnts |
| Common IDs used for budding yeast (Saccharomyces cerevisa) genes | orf2eg sc.gene |
