hacksig: A Tidy Framework to Hack Gene Expression Signatures
A collection of cancer transcriptomics gene signatures as well as a simple and tidy interface to compute single sample enrichment scores either with the original procedure or with three alternatives: the "combined z-score" of Lee et al. (2008) <doi:10.1371/journal.pcbi.1000217>, the "single sample GSEA" of Barbie et al. (2009) <doi:10.1038/nature08460> and the "singscore" of Foroutan et al. (2018) <doi:10.1186/s12859-018-2435-4>. The 'get_sig_info()' function can be used to retrieve information about each signature implemented.
| Version: | 0.1.2 |
| Depends: | R (≥ 4.0) |
| Imports: | dplyr (≥ 1.0.7), future.apply (≥ 1.8.1), rlang (≥ 0.4.11), stats (≥ 4.0.5), tibble (≥ 3.1.5), tidyr (≥ 1.1.4) |
| Suggests: | covr, future (≥ 1.22.1), ggplot2 (≥ 3.3.5), knitr (≥ 1.36), msigdbr (≥ 7.4.1), purrr (≥ 0.3.4), rmarkdown (≥ 2.11) |
| Published: | 2022-02-17 |
| DOI: | 10.32614/CRAN.package.hacksig |
| Author: | Andrea Carenzo 
[aut, cre],
Loris De Cecco
[aut],
Federico Pistore [aut] |
| Maintainer: | Andrea Carenzo <andrea.carenzo at gmail.com> |
| BugReports: | https://github.com/Acare/hacksig/issues |
| License: | MIT + file LICENSE |
| URL: | https://github.com/Acare/hacksig |
| NeedsCompilation: | no |
| Materials: | README NEWS |
| CRAN checks: | hacksig results [issues need fixing before 2025-03-26] |
Documentation:
| Reference manual: | hacksig.pdf |
| Vignettes: |
Introduction to hacksig |
Downloads:
| Package source: | hacksig_0.1.2.tar.gz |
| Windows binaries: | r-devel: hacksig_0.1.2.zip, r-release: hacksig_0.1.2.zip, r-oldrel: hacksig_0.1.2.zip |
| macOS binaries: | r-devel (arm64): hacksig_0.1.2.tgz, r-release (arm64): hacksig_0.1.2.tgz, r-oldrel (arm64): hacksig_0.1.2.tgz, r-devel (x86_64): hacksig_0.1.2.tgz, r-release (x86_64): hacksig_0.1.2.tgz, r-oldrel (x86_64): hacksig_0.1.2.tgz |
| Old sources: | hacksig archive |
Linking:
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