R Observatory: Metrics for bmass version 1.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

bmass

1.0.3

Bayesian Multivariate Analysis of Summary Statistics

0packages depend

2.6Kdownloads / year

0.0%test coverage

11/13checks pass

Overview

About

Maintained by Michael TurchinFirst published 2019-05-171 releasesCRAN page ↗GitHub ↗

Multivariate tool for analyzing genome-wide association study results in the form of univariate summary statistics. The goal of 'bmass' is to comprehensively test all possible multivariate models given the phenotypes and datasets provided. Multivariate models are determined by assigning each phenotype to being either Unassociated (U), Directly associated (D) or Indirectly associated (I) with the genetic variant of interest. Test results for each model are presented in the form of Bayes factors, thereby allowing direct comparisons between models. The underlying framework implemented here is based on the modeling developed in "A Unified Framework for Association Analysis with Multiple Related Phenotypes", M. Stephens (2013) doi:10.1371/journal.pone.0065245.

Install

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

install.packages("bmass", 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("mturchin20/bmass")

Development version from mturchin20/bmass. 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-bmass

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-bmass

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-bmass

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

Health

CRAN checks

2NOTE11OK

Failing flavors

NOTE r-devel-linux-x86_64-debian-clang
NOTE r-devel-linux-x86_64-debian-gcc

Slowest check: 1.1 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.24

0.0%

Coverage · measured lines

100%

Documentation · exports

2

Dependencies · direct

Check history

NOTE2026-03-10
12 OK · 2 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 95%
Return-value docs: 100%
References docs: 0%

Downloads

2.6K

CRAN downloads in the past year

Rank #18,338 · ~7/day · ~214/mo

Releases R versions

Daily download trend is not available in this view yet.

17430 days

58390 days

2.6K1 year

Compare downloads with other packages →

Also on116 r2u3 autocran

Repository

GitHub ↗ mturchin20/bmass

11Stars

1Forks

0Open issues

0Open PRs

8Releases

162Commits

3Contributors

License MIT · 162 commits · Last activity 2020-09-17 · +10% stars, 30d

Stars over time

2024-09-18 · 102026-07-22 · 11

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 3 families in the upstream repository

Checks run against github.com/mturchin20/bmass on 2026-08-03.

Continuous integration (1)

Travis CI

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3.0

Imports (2)

utilsstats

LinkingTo (0)

none

Suggests (3)

testthat knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Michael Turchin

Author, Maintainer

Authors (2)

Michael Turchin

Author, Maintainer

Matthew Stephens

Author

Contributors (1)

Peter Carbonetto

Contributor

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
1.0.3Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2019-05-17
Total releases: 1 / 7 yrs
License: GPL (>= 3) OSI
Minimum R: ≥ 3.3.0
Bundled data: 3.4 KB / 7 files
Download size: 60 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("bmass")

Format

Turchin, M., Carbonetto, P., & Stephens, M. (2019). bmass: Bayesian Multivariate Analysis of Summary Statistics (Version 1.0.3) [Computer software]. https://doi.org/10.32614/CRAN.package.bmass

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 bmass version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-08-07. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-07, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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