R Observatory: Metrics for BlockFeST version 2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2022-06-28. Its history is shown below.

Reason: requires archived package 'BASIX'

Details below reflect version 2.0, its last release before removal.

BlockFeST

2.0

Bayesian Calculation of Region-Specific Fixation Index to Detect Local Adaptation

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Bastian Pfeifer4 releasesCRAN page ↗

An R implementation of an extension of the 'BayeScan' software (Foll, 2008) DOI:10.1534/genetics.108.092221 for codominant markers, adding the option to group individual SNPs into pre-defined blocks. A typical application of this new approach is the identification of genomic regions, genes, or gene sets containing one or more SNPs that evolved under directional selection.

Install

R (source archive)Ubuntu (r2u)openSUSE (OBS)

url <- "https://cran.r-project.org/src/contrib/Archive/BlockFeST/BlockFeST_2.0.tar.gz"
pkgFile <- "BlockFeST_2.0.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (2.0) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

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-blockfest

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

# 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-BlockFeST

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

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

2

Dependencies · direct

Documentation

READMEYes · 13 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 33% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 100%
Return-value docs: 100%
References docs: 50%

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on322 r2u24 autocran2.6K conda_forge385 bioconda

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Depends (2)

R >= 2.14.2BASIX

Imports (1)

methods

LinkingTo (0)

none

Suggests (1)

PopGenome

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

People & History

People (1)

Other (1)

Bastian Pfeifer

Contributor

Package Timeline

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

R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2022-06-28
requires archived package 'BASIX'
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
2.0
2021-03-15 · diff ↗
1.8
2020-11-24 · diff ↗
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
unarchivedReturned to CRAN
2018-05-07
1.6
2018-05-06 · diff ↗
archivedRemoved from CRAN
2018-05-03
check problems were not corrected despite reminders
R
R 3.5.0 released · 2018-04-23
1.3
2018-02-12
R
R 3.4.0 released · 2017-04-21

Package metadata

Total releases: 4
License: GPL-2 OSI
Minimum R: ≥ 2.14.2
Download size: not tracked yet
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("BlockFeST")

Format

Pfeifer, B. (n.d.). BlockFeST: Bayesian Calculation of Region-Specific Fixation Index to Detect Local Adaptation (Version 2.0) [Computer software]. Retrieved August 14, 2026, from https://CRAN.R-project.org/package=BlockFeST

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 BlockFeST version 2.0 [Data set]. HJJB, LLC. Data release v2026-08-13. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-13, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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