octad
Open Cancer TherApeutic Discovery (OCTAD)
Bioconductor version: 3.24 · Package version: 1.15.1
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
OCTAD provides a platform for virtually screening compounds targeting precise cancer patient groups. The essential idea is to identify drugs that reverse the gene expression signature of disease by tamping down over-expressed genes and stimulating weakly expressed ones. The package offers deep-learning based reference tissue selection, disease gene expression signature creation, pathway enrichment analysis, drug reversal potency scoring, cancer cell line selection, drug enrichment analysis and in silico hit validation. It currently covers ~20,000 patient tissue samples covering 50 cancer types, and expression profiles for ~12,000 distinct compounds.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("octad")Details
| Maintainer | E. Chekalin <eygen.chekalin@gmail.com> |
| Author | E. Chekalin [aut, cre], S. Paithankar [aut], B. Zeng [aut], B. Glicksberg [ctb], P. Newbury [ctb], J. Xing [ctb], K. Liu [ctb], A. Wen [ctb], D. Joseph [ctb], B. Chen [aut] |
| License | Artistic-2.0 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | Classification, GeneExpression, GeneSetEnrichment, Pharmacogenetics, Pharmacogenomics, Software |
| Package Short Url | https://bioconductor.org/packages/octad/ |
Citation
From within R, enter citation("octad"):
E. Chekalin, S. Paithankar, B. Zeng, B. Chen. octad: Open Cancer TherApeutic Discovery (OCTAD). doi:10.18129/B9.bioc.octad, R package version 1.15.1, https://bioconductor.org/packages/octad.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | octad_1.15.1.tar.gz |
| macOS binary (arm64) | octad_1.15.1.tgz |
| macOS binary (x86_64) | octad_1.15.1.tgz |