supersigs
Supervised mutational signatures
Bioconductor version: 3.23 · Package version: 1.20.0
Generate SuperSigs (supervised mutational signatures) from single nucleotide variants in the cancer genome. Functions included in the package allow the user to learn supervised mutational signatures from their data and apply them to new data. The methodology is based on the one described in Afsari (2021, ELife).
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("supersigs") Details
| Maintainer | Albert Kuo <albertkuo@jhu.edu> |
| Author | Albert Kuo [aut, cre] (ORCID: <https://orcid.org/0000-0001-5155-0748>), Yifan Zhang [aut], Bahman Afsari [aut], Cristian Tomasetti [aut] |
| License | GPL-3 |
| URL | https://tomasettilab.github.io/supersigs/ |
| Bug Reports | https://github.com/TomasettiLab/supersigs/issues |
| Status | Deprecated |
| Downloads rank | 288 |
| Source branch | RELEASE_3_23 |
| biocViews | Classification, FeatureExtraction, Regression, Sequencing, Software, SomaticMutation, WholeGenome |
Download
Dependencies
Depends: R (>= 4.1)
Imports: assertthat, caret, dplyr, tidyr, rsample, methods, rlang, utils, Biostrings, stats, SummarizedExperiment
Suggests: BSgenome.Hsapiens.UCSC.hg19, BSgenome.Hsapiens.UCSC.hg38, knitr, rmarkdown, ggplot2, testthat, VariantAnnotation