R Observatory: Metrics for MAPITR version 1.1.2

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2025-09-17. Its history is shown below.

Reason: email to the maintainer is undeliverable

Details below reflect version 1.1.2, its last release before removal.

MAPITR

1.1.2

MArginal ePIstasis Test for Regions

0packages depend

–downloads / year

–test coverage

–checks pass

Overview

About

Maintained by Michael Turchin3 releasesCRAN page ↗GitHub ↗

A genetic analysis tool and variance component model for identifying marginal epistasis between pathways and the rest of the genome. 'MAPITR' uses as input a matrix of genotypes, a vector of phenotypes, and a list of pathways. 'MAPITR' then iteratively tests each pathway for epistasis between any variants within the pathway versus any variants remaining in the rest of the genome. 'MAPITR' returns results in the form of p-values for every pathway indicating whether the null model of there being no epistatic interactions between a pathway and the rest of the genome can be rejected.

Install

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

url <- "https://cran.r-project.org/src/contrib/Archive/MAPITR/MAPITR_1.1.2.tar.gz"
pkgFile <- "MAPITR_1.1.2.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 (1.1.2) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("mturchin20/MAPITR")

Development version from mturchin20/MAPITR. 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-mapitr

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-MAPITR

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

Health

CRAN checks

CRAN check results are not tracked yet.

Code health

Yes

Tests · ratio 0.29

not tracked

Coverage

100%

Documentation · exports

4

Dependencies · direct

Documentation

READMEYes · 304 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

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

Downloads

Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

Also on363 r2u15 autocran

Dependencies

Declared dependencies

8 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.3.0

Imports (4)

statsdoParallel Rcpp CompQuadForm

LinkingTo (2)

Rcpp RcppArmadillo

Suggests (3)

testthat knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (5)

Maintainer (1)

Michael Turchin

Author, Maintainer

Authors (4)

Author, Maintainer

Author, Contributor

Author, Contributor

Author

Contributors (3)

Gregory Darnell

Author, Contributor

Lorin Crawford

Author, Contributor

Peter Carbonetto

Contributor

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
archivedRemoved from CRAN
2025-09-17
email to the maintainer is undeliverable
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.1.2
2020-09-28 · diff ↗
1.1.1
2020-09-23 · diff ↗
1.0.5
2020-09-17
R
R 4.0.0 released · 2020-04-24

Package metadata

Total releases: 3
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.3.0
Bundled data: 249 KB / 8 files
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("MAPITR")

Format

Turchin, M., Darnell, G., Crawford, L., Ramachandran, S., & Carbonetto, P. (n.d.). MAPITR: MArginal ePIstasis Test for Regions (Version 1.1.2) [Computer software]. Retrieved August 13, 2026, from https://CRAN.R-project.org/package=MAPITR

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 MAPITR version 1.1.2 [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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