Package: sharp
Type: Package
Title: Stability-enHanced Approaches using Resampling Procedures
Version: 1.4.8
Date: 2025-07-23
Authors@R: person(given = "Barbara",
  family = "Bodinier",
  role = c("aut", "cre"),
  email = "barbara.bodinier@gmail.com")
Maintainer: Barbara Bodinier <barbara.bodinier@gmail.com>
URL: https://github.com/barbarabodinier/sharp
BugReports: https://github.com/barbarabodinier/sharp/issues
Description: 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.
License: GPL (>= 3)
Language: en-GB
Encoding: UTF-8
RoxygenNote: 7.3.1
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
Additional_repositories: https://barbarabodinier.github.io/drat
Config/testthat/edition: 3
RdMacros: Rdpack
Config/pak/sysreqs: cmake libglpk-dev libxml2-dev
Repository: https://barbarabodinier.r-universe.dev
Date/Publication: 2025-07-23 21:11:31 UTC
RemoteUrl: https://github.com/barbarabodinier/sharp
RemoteRef: HEAD
RemoteSha: 5a0d649b20c747be5d98e99f3cbe15cf75d3c2c5
NeedsCompilation: no
Packaged: 2026-10-15 07:02:15 UTC; root
Author: Barbara Bodinier [aut, cre]