R Observatory: Metrics for pbatR version 2.2-17

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

pbatR

2.2-17Package record

Pedigree/Family-Based Genetic Association Tests Analysis and Power

1packages depend

3.7Kdownloads / year

–test coverage

8/13flavors OK

Overview

About

Maintained by Thomas HoffmannCRAN page ↗Website ↗

This R package provides power calculations via internal simulation methods. The package also provides a frontend to the now abandoned PBAT program (developed by Christoph Lange), and reads in the corresponding output and displays results and figures when appropriate. The license of this R package itself is GPL. However, to have the program interact with the PBAT program for some functionality of the R package, users must additionally obtain the PBAT program from Christoph Lange, and accept his license. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.

Install

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

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

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

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-pbatr

Fast Ubuntu binaries via r2u (no compilation). The cranapt setup runs once and is skipped when it is already enabled. We list this channel from recorded r2u download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

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-pbatR

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-pbatR

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

5NOTE8OK

Check messages

NOTEdependencies in R coder-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64

r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc

Base package in Suggests/Enhances imported in NAMESPACE:
  ‘tcltk’

r-devel-windows-x86_64

Base package in Suggests/Enhances imported in NAMESPACE:
  'tcltk'

NOTECRAN incoming feasibilityr-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc

Maintainer: ‘Thomas Hoffmann <tjhoffm@gmail.com>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Thomas",
                      family = "Hoffmann",
                      role = c("aut", "cre"),
                      email = "tjhoffm@gmail.com"),
               person(given = c("with", "contributions", "from", "Christoph"),
                      family = "Lange",
                      role = "aut",
                      email = "clange@hsph.harvard.edu"))
as necessary.

CRAN check page ↗

Slowest check: 3.5 min · r-devel-windows-x86_64

Status changes

NOTE8 OK, 5 NOTENow
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.2-17

READMENoVignettesNoNEWSNoCitation fileNoWebsiteYes

Help pages: 17
Examples that run: 43%3 run in a plain check · 4 never run
Exported functions with examples: 44%
Documented parameters: 100%
Return-value docs: 13%
Help pages citing references: 18%

How these are measured

Downloads

3.7K

CRAN downloads in the past year

Rank #6,502 · ~10/day · ~307/mo

Releases R versions

Daily download trend is not available in this view yet.

54730 days

1.3K90 days

3.7K1 year

Compare downloads with other packages →

Also on338 r2u3 autocran128 c2d4u

How downloads are counted

Dependencies

Declared dependencies

2 external dependencies (excludes base and recommended)

Installing pbatR adds 1 package (1 with compiled code, 492 KB of source tarballs). Heaviest: rootSolve 492 KB.

Depends (1)

R >= 2.0.0

Imports (2)

survivalrootSolve

LinkingTo (0)

none

Suggests (2)

kinship2tcltk

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

Depends 1

Depends, Imports or LinkingTo, most downloaded first

fbati

How these are counted

Code & Tests

People & History

People (from the free-text Author field) (2)

Thomas Hoffmann

· added in 2.1.4

with contributions from Christoph Lange

· added in 2.1.4

Maintainer since 0.5.1 (2005)

Listed in earlier versions (3)

Show 3 peopleHide 3 people

R interface: Thomas Hoffmann

no longer listed · 0.5.1 to 1.3.4

PBAT: Christoph Lange

no longer listed · 0.5.1 to 2.1.2.1

pbatR: Thomas Hoffmann

no longer listed · 2.0.1 to 2.1.2.1

Releases (31)

Pick two releases to compare their code metrics.

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
2.2-17Latest
record
2024-01-29 · current release · diff ↗ ·
removed 1 export
ped.markerNames

added 1 export
pedMarkerNames
R
R 4.3.0 released · 2023-04-21
2.2-16
record
2023-03-03 · diff ↗
2.2-15
record
2023-02-04 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
2.2-13
record
2018-04-20 · diff ↗
R
R 3.4.0 released · 2017-04-21
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16

Show 43 earlier eventsHide 43 earlier events

R
R 3.1.0 released · 2014-04-10
R
R 3.0.0 released · 2013-04-03
2.2-9
record
2013-03-30 · diff ↗
2.2-8
record
2013-03-23 · diff ↗
2.2-7
record
2012-12-29 · diff ↗
2.2-5
record
2012-12-27 · diff ↗
R
R 2.15.0 released · 2012-03-30
R
R 2.14.0 released · 2011-10-31
R
R 2.13.0 released · 2011-04-13
R
R 2.12.0 released · 2010-10-15
2.2-3
record
2010-09-08 · diff ↗
2.2-2
record
2010-09-01 · diff ↗
R
R 2.11.0 released · 2010-04-22
2.2-0
record
2009-11-23 · diff ↗
R
R 2.10.0 released · 2009-10-26
2.1.5
record
2009-06-18 · diff ↗
R
R 2.9.0 released · 2009-04-17
2.1.4
record
2009-03-10 · diff ↗ ·
added 1 export
ped.markerNames
2.1.2.1
record
2009-02-23 · diff ↗
R
R 2.8.0 released · 2008-10-20
2.1.2
record
2008-08-12 · diff ↗
2.1.1
record
2008-05-09 · diff ↗ ·
added 8 exports
fread.phe, fread.ped, is.cped, as.cped, read.cped, fread.cped, write.cped, plotCPed
R
R 2.7.0 released · 2008-04-22
R
R 2.6.0 released · 2007-10-03
2.0.2
record
2007-09-27 · diff ↗ ·
added 2 exports
pbat.getwine, pbat.setwine
2.0.1
record
2007-07-18 · diff ↗ ·
removed 5 exports
pbat.generateData, pbat.binaryFamily, pbat.continuousFamily, pbat.caseControl, pbat.popQuant

added 7 exports
affectionPhe, plotPed, pbat.powerCmd, pbat.work, pbat.unwork, top, pbat.status
R
R 2.5.0 released · 2007-04-24
1.3.4
record
2007-03-30 · diff ↗ ·
added 3 exports
pbat.setVersionCheck, pbat.firsttime, obfuscate
1.3.2
record
2007-02-26 · diff ↗
1.3.1
record
2007-02-11 · diff ↗
1.3
record
2007-01-30 · diff ↗ ·
added 4 exports
is.pped, as.pped, read.pped, c2bat
1.2
record
2006-10-20 · diff ↗
1.1.1
record
2006-10-08 · diff ↗ ·
added 1 export
pbat.help
R
R 2.4.0 released · 2006-10-03
1.1
record
2006-09-11 · diff ↗
1.0.1
record
2006-09-06 · diff ↗
1.0
record
2006-08-03 · diff ↗ ·
removed 5 exports
summary.pbat, plot.pbat, print.pbat, pbat.getNumProcesses, pbat.setNumProcesses

added 13 exports
pbat.getmode, pbat.setmode, pbat.setmode.defaults, pbat.clean, is.finished, pbat.load, pbat.concatenate, pbat.generateData, pbat.power, pbat.binaryFamily, pbat.continuousFamily, pbat.caseControl, pbat.popQuant
R
R 2.3.0 released · 2006-04-24
0.8
record
2006-01-28 · diff ↗
0.7
record
2006-01-23 · diff ↗ ·
added 2 exports
write.pbat, write.pbat.csv
0.6
record
2006-01-16 · diff ↗ ·
added 2 exports
pbat.getNumProcesses, pbat.setNumProcesses
0.5.1
record
2005-11-20
R
R 2.2.0 released · 2005-10-06

Package metadata

First published: 2005-11-20
Total releases: 31 / 21 yrs
License: GPL
Minimum R: ≥ 2.0.0
Download size: 122 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("pbatR")

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 pbatR version 2.2-17 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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