SelectSim: Selected Events Linked by Evolutionary Conditions in Cancer
Implements the 'SelectSim' methodology for identifying patterns of co-occurrence and mutual exclusivity between functional genomic alterations in cancer cohorts. The package processes mutation annotation data, constructs alteration matrices, estimates expected alteration-pair frequencies, and quantifies deviations associated with selective interactions. The methodology is described in Iyer et al. (2026) <doi:10.1038/s41588-026-02661-4>.
| Version: | 0.1.6 |
| Depends: | R (≥ 3.5) |
| Imports: | doParallel, doRNG, dplyr, foreach, ggplot2, ggpubr, ggridges, Matrix, parallel, Rcpp, Rfast, stats |
| LinkingTo: | Rcpp, RcppArmadillo |
| Suggests: | knitr, rmarkdown, testthat (≥ 3.0.0), tictoc |
| Published: | 2026-07-21 |
| DOI: | 10.32614/CRAN.package.SelectSim |
| Author: | Arvind Iyer  [aut,
cre, cph],
Marco Mina [aut],
Miljan Petrovic [aut, cph],
Giovanni Ciriello
[aut, cph] |
| Maintainer: | Arvind Iyer <ayalurarvind at gmail.com> |
| BugReports: | https://github.com/CSOgroup/SelectSim/issues |
| License: | MIT + file LICENSE |
| URL: | https://csogroup.github.io/SelectSim/ |
| NeedsCompilation: | yes |
| Language: | en-US |
| Citation: | SelectSim citation info |
| Materials: | README, NEWS |
| CRAN checks: | SelectSim results |
Documentation:
| Reference manual: | SelectSim.html , SelectSim.pdf |
| Vignettes: |
Data Processing with SelectSim (source, R code) Introduction to SelectSim (source, R code) |
Downloads:
| Package source: | SelectSim_0.1.6.tar.gz |
| Windows binaries: | r-devel: SelectSim_0.1.6.zip, r-release: SelectSim_0.1.6.zip, r-oldrel: not available |
| macOS binaries: | r-release (arm64): SelectSim_0.1.6.tgz, r-oldrel (arm64): SelectSim_0.1.6.tgz, r-release (x86_64): SelectSim_0.1.6.tgz, r-oldrel (x86_64): SelectSim_0.1.6.tgz |
Linking:
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