fmcmc

0.5-2

A friendly MCMC framework

2packages depend

6.1Kdownloads / year

84.4%test coverage

11/13checks pass

Overview

About

Maintained by George Vega YonFirst published 2019-08-276 releasesCRAN page ↗GitHub ↗

Provides a friendly (flexible) Markov Chain Monte Carlo (MCMC) framework for implementing Metropolis-Hastings algorithm in a modular way allowing users to specify automatic convergence checker, personalized transition kernels, and out-of-the-box multiple MCMC chains using parallel computing. Most of the methods implemented in this package can be found in Brooks et al. (2011, ISBN 9781420079425). Among the methods included, we have: Haario (2001) doi:10.1007/s11222-011-9269-5 Adaptive Metropolis, Vihola (2012) doi:10.1007/s11222-011-9269-5 Robust Adaptive Metropolis, and Thawornwattana et al. (2018) doi:10.1214/17-BA1084 Mirror transition kernels.

Install

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

install.packages("fmcmc", 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("USCbiostats/fmcmc")

Development version from USCbiostats/fmcmc. 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-fmcmc

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-fmcmc

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-fmcmc

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: 3.1 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.01

84.4%

Coverage · measured lines

100%

Documentation · exports

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: 68%
Return-value docs: 88%
References docs: 42%

Downloads

6.1K

CRAN downloads in the past year

Rank #11,852 · ~17/day · ~505/mo

Releases R versions

Daily download trend is not available in this view yet.

25330 days

85490 days

6.1K1 year

Compare downloads with other packages →

Also on119 r2u2 autocran65 c2d4u

Repository

GitHub ↗ uscbiostats/fmcmc

16Stars

7Forks

7Open issues

1Open PRs

4Releases

170Commits

3Contributors

mcmcadaptiveparallel-computingmarkov-chain-monte-carlor-packagebayesian-inferencermetropolis-hastings

170 commits · Last activity 2025-12-13

Stars over time

2024-06-27 · 162026-07-07 · 16

Repository practices

Upstream repositoryBeta

7 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/uscbiostats/fmcmc on 2026-07-31.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (2)

data-raw/Makefile

CRAN release process (1)

cran-comments.md

Docs source (1)

README.qmd

Show all practices

Lint, format, editor (1)

RStudio project

Coverage (1)

Codecov

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

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3.0

Imports (6)

parallelcodastatsmethodsMASSMatrix

LinkingTo (0)

none

Suggests (6)

covr knitr rmarkdown mcmc tinytest mvtnorm

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

2direct

0indirect

aphylo ergmito

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

George Vega Yon

Author, Maintainer

Authors (1)

George Vega Yon

Author, Maintainer

Contributors (1)

Paul Marjoram

Contributor, Thesis advisor

Funders (1)

National Cancer Institute (NCI)

Funder

Reviewers (1)

Fabian Scheipl

Reviewer

Package Timeline

6 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
0.5-2Latest
2023-08-30 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
0.5-1
2022-01-14 · diff ↗
0.5-0
2021-09-03 · diff ↗
R
R 4.1.0 released · 2021-05-18
0.4-0
2020-09-01 · diff ↗
R
R 4.0.0 released · 2020-04-24
0.3-0
2020-04-23 · diff ↗
0.2-0
2019-08-27
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-08-27
Total releases: 6 / 7 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.3.0
Bundled data: 8.1 KB / 1 file
Download size: 1.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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