ssPATHS
ssPATHS: Single Sample PATHway Score
Bioconductor version: 3.24 · Package version: 1.27.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
This package generates pathway scores from expression data for single samples after training on a reference cohort. The score is generated by taking the expression of a gene set (pathway) from a reference cohort and performing linear discriminant analysis to distinguish samples in the cohort that have the pathway augmented and not. The separating hyperplane is then used to score new samples.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("ssPATHS")Details
| Maintainer | Natalie R. Davidson <natalie.davidson@inf.ethz.ch> |
| Author | Natalie R. Davidson |
| License | MIT + file LICENSE |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | BiomedicalInformatics, Classification, DimensionReduction, GeneExpression, Pathways, RNASeq, Software, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/ssPATHS/ |
Citation
From within R, enter citation("ssPATHS"):
Natalie R. Davidson. ssPATHS: ssPATHS: Single Sample PATHway Score. doi:10.18129/B9.bioc.ssPATHS, R package version 1.27.0, https://bioconductor.org/packages/ssPATHS.
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 | ssPATHS_1.27.0.tar.gz |
| Windows binary (x86_64) | ssPATHS_1.27.0.zip |
| macOS binary (arm64) | ssPATHS_1.27.0.tgz |
| macOS binary (x86_64) | ssPATHS_1.27.0.tgz |