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Implements the multivariate adaptive shrinkage (mash) method of Urbut et al (2019) <doi:10.1038/s41588-018-0268-8> for estimating and testing large numbers of effects in many conditions (or many outcomes). Mash takes an empirical Bayes approach to testing and effect estimation; it estimates patterns of similarity among conditions, then exploits these patterns to improve accuracy of the effect estimates. The core linear algebra is implemented in C++ for fast model fitting and posterior computation.
| Version: | 0.2.79 |
| Depends: | R (≥ 3.3.0), ashr (≥ 2.2-22) |
| Imports: | assertthat, utils, stats, plyr, rmeta, Rcpp (≥ 1.0.8), mvtnorm, abind, softImpute |
| LinkingTo: | Rcpp, RcppArmadillo, RcppGSL (≥ 0.3.8) |
| Suggests: | MASS, REBayes, corrplot (≥ 0.90), testthat, kableExtra, knitr, rmarkdown, profmem, flashier, ebnm |
| Published: | 2023-10-18 |
| DOI: | 10.32614/CRAN.package.mashr |
| Author: | Matthew Stephens [aut], Sarah Urbut [aut], Gao Wang [aut], Yuxin Zou [aut], Yunqi Yang [ctb], Sam Roweis [cph], David Hogg [cph], Jo Bovy [cph], Peter Carbonetto [aut, cre] |
| Maintainer: | Peter Carbonetto <peter.carbonetto at gmail.com> |
| BugReports: | https://github.com/stephenslab/mashr/issues |
| License: | BSD_3_clause + file LICENSE |
| Copyright: | file COPYRIGHTS mashr copyright details |
| URL: | https://github.com/stephenslab/mashr |
| NeedsCompilation: | yes |
| Citation: | mashr citation info |
| Materials: | README |
| CRAN checks: | mashr results |
| Package source: | mashr_0.2.79.tar.gz |
| Windows binaries: | r-devel: mashr_0.2.79.zip, r-release: mashr_0.2.79.zip, r-oldrel: mashr_0.2.79.zip |
| macOS binaries: | r-release (arm64): mashr_0.2.79.tgz, r-oldrel (arm64): mashr_0.2.79.tgz, r-release (x86_64): mashr_0.2.79.tgz, r-oldrel (x86_64): mashr_0.2.79.tgz |
| Old sources: | mashr archive |
| Reverse imports: | dreamlet, limorhyde2, multistateQTL |
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.