corehunter

3.2.3

Multi-Purpose Core Subset Selection

1packages depend

4.7Kdownloads / year

91.4%test coverage

13/13checks pass

Overview

About

Maintained by Herman De BeukelaerFirst published 2016-10-047 releasesCRAN page ↗

Core Hunter is a tool to sample diverse, representative subsets from large germplasm collections, with minimum redundancy. Such so-called core collections have applications in plant breeding and genetic resource management in general. Core Hunter can construct cores based on genetic marker data, phenotypic traits or precomputed distance matrices, optimizing one of many provided evaluation measures depending on the precise purpose of the core (e.g. high diversity, representativeness, or allelic richness). In addition, multiple measures can be simultaneously optimized as part of a weighted index to bring the different perspectives closer together. The Core Hunter library is implemented in Java 8 as an open source project (see http://www.corehunter.org).

Install

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

install.packages("corehunter", 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-corehunter

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-corehunter

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

Health

CRAN checks

13OK

Slowest check: 3.5 min · r-devel-linux-x86_64-fedora-clang

Code health

Yes

Tests · ratio 0.63

91.4%

Coverage · measured lines

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-04-06
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-04
13 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 351 wordsVignettesNopkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 40%
Documented parameters: 100%
Return-value docs: 100%
References docs: 0%

Downloads

4.7K

CRAN downloads in the past year

Rank #9,742 · ~13/day · ~394/mo

Releases R versions

Daily download trend is not available in this view yet.

39830 days

1.1K90 days

4.7K1 year

Compare downloads with other packages →

Also on109 r2u

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Depends (2)

R >= 3.2.3rJava

Imports (2)

naturalsortmethods

LinkingTo (0)

none

Suggests (3)

testthat mockr StatMatch

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

1direct

0indirect

EvaluateCore

Code & Tests

Code Composition

R 3,339 (75%)Rd 1,043 (23%)Other 59 (1%)

Code characteristics

Object systems

S38

Cyclomatic complexity: 2.0 median / 45 max
Test cases: 46 / 0.63 per code line
System requirements: 1 external

Test coverage

Line coverage

91%

Expression

92.0%

Tests / Examples

91.4% / 51% ex

Functions

41 12 exported

Complexity

5.5 avg / 45 max

Call network

41 nodes / 56 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

41 functions

Function	Cyclo	Coverage
getAlleleFrequencies exp	6	0%
getNormalizationRanges exp	2	0%
.onLoad	2	0%
java.version.string	1	0%
setRange exp	6	60%
ch.objectives	2	89%

People & History

People (3)

Maintainer (1)

Herman De Beukelaer

Author, Maintainer

Authors (2)

Herman De Beukelaer

Author, Maintainer

Guy Davenport

Author

Other (1)

Veerle Fack

Thesis advisor

Package Timeline

7 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
R
R 4.4.0 released · 2024-04-24
3.2.3Latest
2023-09-01 · current release · diff ↗
3.2.2
2023-05-11 · diff ↗
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
3.2.1
2018-04-16 · diff ↗
3.2.0
2017-09-08 · diff ↗
R
R 3.4.0 released · 2017-04-21
3.1.0
2017-02-20 · diff ↗
3.0.1
2016-10-04 · diff ↗

Show 2 earlier events

3.0.0
2016-10-04
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2016-10-04
Total releases: 7 / 10 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 3.2.3
Download size: 645 KB
Installed size: not tracked yet
With dependencies: not tracked yet

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