CoSIAdata
This is the released version of CoSIAdata; for the devel version, see CoSIAdata.
VST normalized RNA-Sequencing data with annotations for multiple species samples from Bgee
Bioconductor version: Release (3.23)
Variance Stabilized Transformation of Read Counts derived from Bgee RNA-Seq Expression Data. Expression Data includes annotations and is across 6 species (Homo sapiens, Mus musculus, Rattus norvegicus, Danio rerio, Drosophila melanogaster, and Caenorhabditis elegans) and across more than 132 tissues. The data is represented as a RData files and is available in ExperimentHub.
Author: Anisha Haldar [aut]
, Vishal H. Oza [aut]
, Amanda D. Clark [cre, aut]
, Nathaniel S. DeVoss [aut]
, Brittany N. Lasseigne [aut]
Maintainer: Amanda D. Clark <clarkaduab at gmail.com>
citation("CoSIAdata")):
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("CoSIAdata")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CoSIAdata")| CoSIAdata | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Caenorhabditis_elegans_Data, Danio_rerio_Data, Drosophila_melanogaster_Data, ExperimentData, ExperimentHub, ExpressionData, Homo_sapiens_Data, Mus_musculus_Data, OrganismData, PackageTypeData, RNASeqData, Rattus_norvegicus_Data, SequencingData, Tissue |
| Version | 1.12.0 |
| License | MIT + file LICENSE |
| Depends | R (>= 4.3.0), ExperimentHub(>= 2.6.0) |
| Imports | |
| System Requirements | |
| URL | |
| Bug Reports | https://github.com/lasseignelab/CoSIAdata/issues |
See More
| Suggests | BiocStyle(>= 2.26.0), utils (>= 4.3.0), AnnotationHub(>= 3.7.3), knitr (>= 1.42) |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | CoSIAdata_1.12.0.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/CoSIAdata |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/CoSIAdata |
| Package Short Url | https://bioconductor.org/packages/CoSIAdata/ |
| Package Downloads Report | Download Stats |