Package: GSVAdata 1.49.2
Robert Castelo
GSVAdata: Data employed in the vignette of the GSVA package
This package stores the data employed in the vignette of the GSVA package. These data belong to the following publications: Cahoy et al. J Neurosci 28:264-278, 2008; Carrel and Willard, Nature, 434:400-404, 2005; Huang et al. PNAS, 104:9758-9763, 2007; Pickrell et al. Nature, 464:768-722, 2010; Skaletsky et al. Nature, 423:825-837; Verhaak et al. Cancer Cell 17:98-110, 2010; Costa et al. FEBS J, 288:2311-2331, 2021.
Authors:
GSVAdata_1.49.2.tar.gz
GSVAdata_1.49.2.tar.gz(r-4.7-any)GSVAdata_1.49.2.tar.gz(r-4.6-any)
manual.pdf |manual.html✨
DESCRIPTION
card.svg |card.png
GSVAdata/json (API)
| # Install 'GSVAdata' in R: |
| install.packages('GSVAdata', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- annotEntrez220212 - Annotation data on gene length and G+C content from NCBI
- brainTxDbSets - Gene sets signatures of brain cell types
- c2BroadSets - C2 collection of canonical pathways from MSigDB 3.0
- gbm_eset - Glioblastoma Multiforme
- geneExpCostaEtAl2021 - RNA-seq Data by Costa et al.
- huangArrayRMAnoBatchCommon_eset - Matching microarray and RNA-seq data from human lymphoblastoid cell lines
- msYgenesEntrez - Entrez genes with documented sex-specific expression
- pickrellCountsArgonneCQNcommon_eset - Matching microarray and RNA-seq data from human lymphoblastoid cell lines
- pickrellCountsYaleCQNcommon_eset - Matching microarray and RNA-seq data from human lymphoblastoid cell lines
- protExpCostaEtAl2021 - RNA-seq Data by Costa et al.
- XiEgenesEntrez - Entrez genes with documented sex-specific expression
On BioConductor:GSVAdata-1.49.2(data/experiment 3.24)GSVAdata-1.48.1(data/experiment 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
experimentdataexpressiondatasequencingdatahomo_sapiens_datacancerdatatissuedatapkg
Last updated from:96cffff014. Checks:1 ERROR, 3 OK. Indexed: yes.
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 | 302 | ||
| linux-devel | OK | 308 | ||
| source / vignettes | OK | 390 | ||
| linux-release | OK | 506 |
Exports:HumanCerebellumNormSubset
Dependencies:abindannotateAnnotationDbiaskpassBiobaseBiocBaseUtilsBiocFileCacheBiocGenericsBiostringsbitbit64blobcachemclicpp11crayoncurlDBIdbplyrDelayedArraydplyrfastmapfilelockgenericsGenomicRangesgluegraphGSEABasehttrhttr2IRangesjsonliteKEGGRESTlatticelifecyclemagickmagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigpngpurrrR6RcpprjsonrlangRSQLiteS4ArraysS4VectorsSeqinfoSingleCellExperimentSparseArraySpatialExperimentstringistringrSummarizedExperimentsystibbletidyrtidyselectutf8vctrswithrXMLxtableXVector
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Data employed in the vignette of the GSVA package. | GSVAdata-package GSVAdata |
| Annotation data on gene length and G+C content from NCBI | annotEntrez220212 |
| Gene sets signatures of brain cell types | brainTxDbSets |
| C2 collection of canonical pathways from MSigDB 3.0 | c2BroadSets |
| Matching microarray and RNA-seq data from human lymphoblastoid cell lines | commonPickrellHuang huangArrayRMAnoBatchCommon_eset pickrellCountsArgonneCQNcommon_eset pickrellCountsYaleCQNcommon_eset |
| Glioblastoma Multiforme (GBM) Data by Verhaak et al. (2010) | gbm_eset gbm_VerhaakEtAl |
| Entrez genes with documented sex-specific expression | genderGenesEntrez msYgenesEntrez XiEgenesEntrez |
| RNA-seq Data by Costa et al. (2021) | geneExpCostaEtAl2021 geneprotExpCostaEtAl2021 protExpCostaEtAl2021 |
| HumanCerebellumSubset | HumanCerebellumNormSubset |