R Observatory: Metrics for fitPoly version 4.0.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

fitPoly

4.0.0

Genotype Calling for Bi-Allelic Marker Assays

1packages depend

3.5Kdownloads / year

0.0%test coverage

13/13checks pass

Overview

About

Maintained by Giorgio TuminoFirst published 2018-03-162 releasesCRAN page ↗

Genotyping assays for bi-allelic markers (e.g. SNPs) produce signal intensities for the two alleles. 'fitPoly' assigns genotypes (allele dosages) to a collection of polyploid samples based on these signal intensities. 'fitPoly' replaces the older package 'fitTetra' that was limited (a.o.) to only tetraploid populations whereas 'fitPoly' accepts any ploidy level. Reference: Voorrips RE, Gort G, Vosman B (2011) doi:10.1186/1471-2105-12-172. New functions added on conversion of data from SNP array software formats, drawing of XY-scatterplots with or without genotype colors, checking against expected F1 segregation patterns, comparing results from two different assays (probes) for the same SNP, recovery from a saveMarkerModels() crash.

Install

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

install.packages("fitPoly", 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-fitpoly

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-fitPoly

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-fitPoly

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

Health

CRAN checks

13OK

Slowest check: 1.9 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.05

0.0%

Coverage · measured lines

100%

Documentation · exports

4

Dependencies · direct

Check history

OK2026-08-05
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-08-01
12 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 178 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 60%
Documented parameters: 99%
Return-value docs: 97%
References docs: 0%

Downloads

3.5K

CRAN downloads in the past year

Rank #14,095 · ~10/day · ~294/mo

Releases R versions

Daily download trend is not available in this view yet.

18330 days

72690 days

3.5K1 year

Compare downloads with other packages →

Also on115 r2u23 autocran

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.2.0

Imports (4)

foreach devEMF doParallelgrDevices

LinkingTo (0)

none

Suggests (2)

knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

mappoly

Code & Tests

Datasets

People & History

People (4)

Maintainer (1)

Giorgio Tumino

Author, Maintainer · added in 4.0.0

Authors (4)

Giorgio Tumino

Author, Maintainer · added in 4.0.0

Gerrit Gort

Author

Alejandro Therese Navarro

Author

Roeland E. Voorrips

Author

Listed in earlier versions (2)

Therese Navarro

no longer listed · 4.0.0

Voorrips

no longer listed · 4.0.0

Package Timeline

2 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
4.0.0Latest
2025-02-13 · current release · diff ↗
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
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
3.0.0
2018-03-16
R
R 3.4.0 released · 2017-04-21

Package metadata

First published: 2018-03-16
Total releases: 2 / 8 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.2.0
Bundled data: 1.2 MB / 4 files
Download size: 1.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("fitPoly")

Format

Tumino, G., Gort, G., Therese Navarro, A., & Voorrips, R. E. (2025). fitPoly: Genotype Calling for Bi-Allelic Marker Assays (Version 4.0.0) [Computer software]. https://doi.org/10.32614/CRAN.package.fitPoly

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 fitPoly version 4.0.0 [Data set]. HJJB, LLC. Data release v2026-08-18. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-18, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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