R Observatory: Metrics for trio version 2.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2013-08-31. Its history is shown below.

Reason: the request of the maintainer

Details below reflect version 2.1.1, its last release before removal.

trio

2.1.1

Testing of SNPs and SNP Interactions in Case-Parent Trio Studies

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Holger Schwender43 releasesCRAN page ↗

Testing SNPs and SNP interactions with a genotypic TDT. This package furthermore contains functions for computing pairwise values of LD measures and for identifying LD blocks, as well as functions for setting up matched case pseudo-control genotype data for case-parent trios in order to run trio logic regression, for imputing missing genotypes in trios, for simulating case-parent trios with disease risk dependent on SNP interaction, and for power and sample size calculation in trio data.

Install

BioconductorR (source archive)Ubuntu (r2u)

BiocManager::install("trio")

Installs the current Bioconductor release. Requires the BiocManager package.

url <- "https://cran.r-project.org/src/contrib/Archive/trio/trio_2.1.1.tar.gz"
pkgFile <- "trio_2.1.1.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 (2.1.1) 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-trio

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

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

0

Dependencies · direct

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 56%
Documented parameters: 99%
Return-value docs: 96%
References docs: 72%

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on92 r2u2K bioconda

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.0.1

Imports (0)

none

LinkingTo (0)

none

Suggests (7)

survivalhaplo.stats mcbiopi siggenessplinesLogicReg logicFS

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (5)

Other (5)

Holger Schwender

Contributor

Qing Li

Contributor

Christoph Neumann

Contributor · added in 1.7.0

Margaret Taub

Contributor · added in 2.1.1

Ingo Ruczinski

Contributor · added in 1.4.12

Package Timeline

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

R
R 3.1.0 released · 2014-04-10
2.1.1archived
2013-08-31 · diff ↗
the request of the maintainer
2.1.1
2013-08-07 · diff ↗
R
R 3.0.0 released · 2013-04-03
2.0.2
2013-03-01 · diff ↗
2.0.1
2013-02-27 · diff ↗
1.9.3
2013-02-04 · diff ↗
1.7.1
2012-10-03 · diff ↗
1.7.0
2012-07-29 · diff ↗
1.5.0
2012-04-20 · diff ↗
1.4.26
2012-04-18 · diff ↗
R
R 2.15.0 released · 2012-03-30
1.4.24
2012-02-09 · diff ↗
1.4.23
2012-02-07 · diff ↗
1.4.18
2012-02-06 · diff ↗
1.4.12
2012-01-11 · diff ↗

Show 36 earlier events

R
R 2.14.0 released · 2011-10-31
1.2.9
2011-10-14 · diff ↗
1.2.8
2011-09-23 · diff ↗
1.2.7
2011-09-13 · diff ↗
1.2.6
2011-08-10 · diff ↗
1.2.3
2011-08-05 · diff ↗
1.2.2
2011-08-03 · diff ↗
1.2.1
2011-07-03 · diff ↗
1.2.0
2011-04-22 · diff ↗
R
R 2.13.0 released · 2011-04-13
1.1.22
2011-04-04 · diff ↗
1.1.17
2010-12-29 · diff ↗
1.1.16
2010-12-20 · diff ↗
1.1.15
2010-11-29 · diff ↗
1.1.13
2010-11-14 · diff ↗
R
R 2.12.0 released · 2010-10-15
1.1.12
2010-09-29 · diff ↗
1.1.10
2010-06-11 · diff ↗
1.1.8
2010-06-10 · diff ↗
1.1.5
2010-05-27 · diff ↗
1.1.4
2010-05-19 · diff ↗
R
R 2.11.0 released · 2010-04-22
1.1.0
2010-04-19 · diff ↗
1.0.19
2010-04-19 · diff ↗
1.0.16
2010-03-17 · diff ↗
1.0.15
2010-03-10 · diff ↗
1.0.14
2010-03-08 · diff ↗
1.0.13
2010-03-03 · diff ↗
1.0.12
2010-03-01 · diff ↗
1.0.2
2010-02-26 · diff ↗
1.0.11
2010-02-25 · diff ↗
1.0.9
2010-02-17 · diff ↗
1.0.7
2010-02-04 · diff ↗
1.0.4
2010-02-02 · diff ↗
1.0.3
2010-01-31
R
R 2.10.0 released · 2009-10-26

Package metadata

Total releases: 43
License: LGPL-2 OSI
Minimum R: ≥ 3.0.1
Bundled data: 131 KB / 1 file
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("trio")

Format

Schwender, H., Li, Q., Neumann, C., Taub, M., & Ruczinski, I. (n.d.). trio: Testing of SNPs and SNP Interactions in Case-Parent Trio Studies (Version 2.1.1) [Computer software]. Retrieved August 13, 2026, from https://CRAN.R-project.org/package=trio

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 trio version 2.1.1 [Data set]. HJJB, LLC. Data release v2026-08-11. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-11, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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