covRNA
covRNA performs advanced analysis of large-scale transcriptomic datasets using fourthcorner and RLQ multivariate methods within the Bioconductor ecosystem.
Key Features:
- Fourthcorner Analysis: Implements fourthcorner analysis to integrate and examine interactions between multivariate data matrices.
- RLQ Analysis: Performs RLQ analysis to decompose three-way data arrays and reveal latent structure in transcriptomic datasets.
- R implementation: Implemented in the statistical programming language R.
- Bioconductor integration: Integrates with Bioconductor, enabling use alongside its ecosystem of 934 interoperable packages.
Scientific Applications:
- Transcriptomics: Applied to high-throughput transcriptomic data to elucidate gene expression patterns and regulatory mechanisms.
- Interdisciplinary research: Supports analyses across genomics and molecular biology by providing multivariate methods for complex data integration.
Methodology:
Implemented in R and applying fourthcorner and RLQ multivariate analyses, with integration into Bioconductor's ecosystem of 934 interoperable packages.
Topics
Collections
Details
- License:
- GPL-2.0
- Tool Type:
- command-line tool, library
- Operating Systems:
- Linux, Windows, Mac
- Programming Languages:
- R
- Added:
- 1/17/2017
- Last Updated:
- 11/24/2024
Operations
Publications
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. Orchestrating high-throughput genomic analysis with Bioconductor. Nature Methods. 2015;12(2):115-121. doi:10.1038/nmeth.3252. PMID:25633503. PMCID:PMC4509590.
Urban LH, Remmele CW, Dittrich M, Schwarz RF, Müller T. covRNA - Discovering covariate associations in large-scale gene expression data. Unknown Journal. 2019. doi:10.21203/rs.2.17618/v1.