sharp: Stability-enHanced Approaches using Resampling Procedures
In stability selection (N Meinshausen, P Bühlmann (2010) <doi:10.1111/j.1467-9868.2010.00740.x>) and consensus clustering (S Monti et al (2003) <doi:10.1023/A:1023949509487>), resampling techniques are used to enhance the reliability of the results. In this package (B Bodinier et al (2025) <doi:10.18637/jss.v112.i05>), hyper-parameters are calibrated by maximising model stability, which is measured under the null hypothesis that all selection (or co-membership) probabilities are identical (B Bodinier et al (2023a) <doi:10.1093/jrsssc/qlad058> and B Bodinier et al (2023b) <doi:10.1093/bioinformatics/btad635>). Functions are readily implemented for the use of LASSO regression, sparse PCA, sparse (group) PLS or graphical LASSO in stability selection, and hierarchical clustering, partitioning around medoids, K means or Gaussian mixture models in consensus clustering.
| Version: | 1.4.8 |
| Depends: | fake (≥ 1.4.0), R (≥ 3.5) |
| Imports: | abind,beepr,future,future.apply,glassoFast (≥ 1.0.0),glmnet, grDevices,igraph,mclust,nloptr,plotrix,Rdpack,withr (≥ 2.4.0) |
| Suggests: | cluster,corpcor,dbscan,elasticnet,gglasso,mixOmics,nnet,OpenMx,RCy3,randomcoloR, rCOSA,rmarkdown,rpart,sgPLS,sparcl,survival (≥ 3.2.13),testthat (≥ 3.0.0),visNetwork |
| Published: | 2025-07-23 |
| DOI: | 10.32614/CRAN.package.sharp |
| Author: | Barbara Bodinier [aut, cre] |
| Maintainer: | Barbara Bodinier <barbara.bodinier at gmail.com> |
| BugReports: | https://github.com/barbarabodinier/sharp/issues |
| License: | GPL (≥ 3) |
| URL: | https://github.com/barbarabodinier/sharp |
| NeedsCompilation: | no |
| Additional_repositories: | https://barbarabodinier.github.io/drat |
| Language: | en-GB |
| Citation: | sharp citation info |
| Materials: | README,NEWS |
| CRAN checks: | sharp results |
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