Package: flashier
Type: Package
Date: 2026-06-30
Title: Empirical Bayes Matrix Factorization
Version: 1.0.60
Authors@R: c(person("Jason", "Willwerscheid", role = c("aut", "cre"),
                    email = "jwillwer@providence.edu"),
             person("Peter", "Carbonetto", role = "aut"),
             person("Wei", "Wang", role = "aut"),
             person("Matthew", "Stephens", role = "aut"),
             person("Eric", "Weine", role = "ctb"),
	     person("Annie", "Xie", role = "ctb"),
             person("Gao", "Wang", role = "ctb"))
URL: https://github.com/willwerscheid/flashier
BugReports: https://github.com/willwerscheid/flashier/issues
Description: Implements empirical Bayes matrix factorization (EBMF), a
        flexible modeling framework for matrix factorization based on
        Wang and Stephens (2021)
        <https://jmlr.org/papers/v22/20-589.html>. Includes many
        popular matrix factorization methods such as SVD, sparse factor
        analysis (SFA), non-negative matrix factorization (NMF) and
        semi-non-negative matrix factorization (semi-NMF) as special
        cases. The model fitting algorithms are implemented using a
        modular computational framework that efficiently handles a
        variety of data types.
Depends: R (>= 4.1), ebnm (>= 0.1-21)
Imports: Matrix, parallel, dplyr, softImpute, irlba, ggplot2, ggrepel,
        fastTopics, cowplot, Polychrome, RColorBrewer, lifecycle, rlang
Suggests: ashr, testthat, knitr, rmarkdown, RcppML, rsvd, Rtsne
Remotes: stephenslab/ebnm, stephenslab/fastTopics
License: BSD_3_clause + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
VignetteBuilder: knitr
Roxygen: list(markdown = TRUE)
Config/pak/sysreqs: cmake make libicu-dev libuv1-dev libssl-dev
Repository: https://willwerscheid.r-universe.dev
Date/Publication: 2026-07-01 02:46:25 UTC
RemoteUrl: https://github.com/willwerscheid/flashier
RemoteRef: HEAD
RemoteSha: fd44811ab22d61ee905e1964175571c452fe7683
NeedsCompilation: no
Packaged: 2026-07-01 06:33:00 UTC; root
Author: Jason Willwerscheid [aut, cre],
  Peter Carbonetto [aut],
  Wei Wang [aut],
  Matthew Stephens [aut],
  Eric Weine [ctb],
  Annie Xie [ctb],
  Gao Wang [ctb]
Maintainer: Jason Willwerscheid <jwillwer@providence.edu>