R Observatory: Metrics for flashier version 1.0.7

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

flashier

1.0.7

Empirical Bayes Matrix Factorization

2packages depend

9.3Kdownloads / year

0.0%test coverage

13/13checks pass

Overview

About

Maintained by Jason WillwerscheidFirst published 2023-10-171 releasesCRAN page ↗GitHub ↗

Methods for matrix factorization based on Wang and Stephens (2021) https://jmlr.org/papers/v22/20-589.html.

Install

R (CRAN)pak (dev)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("flashier", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("willwerscheid/flashier")

Development version from willwerscheid/flashier. Installs pak first if it is not already available.

Release

# enable cranapt (r2u) if it is not already set up, then install
grep -rqs r2u.stat.illinois.edu /etc/apt/sources.list /etc/apt/sources.list.d/ \
  || curl -fsSL https://raw.githubusercontent.com/eddelbuettel/r2u/master/inst/scripts/add_cranapt_noble.sh | sudo bash
sudo apt install -y r-cran-flashier

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled.

bspm (used by r2u) also needs make: sudo apt install make

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-flashier

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-flashier

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 7.6 min · r-release-macos-x86_64

Code health

Yes

Tests · ratio 0.05

0.0%

Coverage · measured lines

100%

Documentation · exports

11

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 143 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 11%

Downloads

9.3K

CRAN downloads in the past year

Rank #9,274 · ~25/day · ~774/mo

Releases R versions

Daily download trend is not available in this view yet.

23530 days

99390 days

9.3K1 year

Compare downloads with other packages →

Also on131 r2u27 autocran

Repository

GitHub ↗ willwerscheid/flashier

17Stars

13Forks

35Open issues

1Open PRs

1Releases

631Commits

6Contributors

631 commits · Last activity 2026-07-01 · 0% stars, 30d

Stars over time

2025-05-08 · 122026-07-07 · 17

Repository practices

Upstream repositoryBeta

2 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/willwerscheid/flashier on 2026-08-16.

Reproducibility and dev environment (1)

data-raw/

Lint, format, editor (1)

RStudio project

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

16 external dependencies (excludes base and recommended)

Depends (3)

R >= 3.4ebnm magrittr

Imports (9)

Matrixparalleldplyr stringr tibble tidyr softImpute irlba ggplot2

LinkingTo (0)

none

Suggests (7)

ashr cowplot testthat knitr rmarkdown RcppML rsvd

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

mr.mashr mashr

Code & Tests

Datasets

People & History

People (6)

Maintainer (1)

Jason Willwerscheid

Author, Maintainer

Authors (4)

Author, Maintainer

Author

Author

Author

Contributors (2)

Gao Wang

Contributor

Eric Weine

Contributor

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.7Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2023-10-17
Total releases: 1 / 3 yrs
License: BSD_3_clause + file LICENSE OSI
Minimum R: ≥ 3.4
Bundled data: 350 KB / 2 files
Download size: 863 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("flashier")

Format

Willwerscheid, J., Carbonetto, P., Stephens, M., Wang, G., Wang, W., & Weine, E. (2023). flashier: Empirical Bayes Matrix Factorization (Version 1.0.7) [Computer software]. https://doi.org/10.32614/CRAN.package.flashier

This is what citation() produces when a package has no citation file of its own. If it prints something else, use that.

Cite the R Observatory

For a number measured here: a download total, a coverage figure, an archival date.

Format

APA

Balamuta, J. J. (2026). R Observatory: Metrics for flashier version 1.0.7 [Data set]. HJJB, LLC. Data release v2026-08-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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