R Observatory: Metrics for HGNChelper version 0.8.15

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

HGNChelper

0.8.15Package record

Identify and Correct Invalid HGNC Human Gene Symbols and MGI Mouse Gene Symbols

4packages depend

28.5Kdownloads / year

61.0%test coverage

13/13flavors OK

Overview

About

Maintained by Levi WaldronCRAN page ↗GitHub ↗Website ↗Issues ↗

Contains functions for identifying and correcting HGNC human gene symbols and MGI mouse gene symbols which have been converted to date format by Excel, withdrawn, or aliased. Also contains functions for reversibly converting between HGNC symbols and valid R names.

Install

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

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

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

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

Development version from waldronlab/HGNChelper. 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-hgnchelper

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-HGNChelper

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-HGNChelper

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

13OK

CRAN check page ↗

Slowest check: 1.5 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK12 OK2026-04-25
NOTE12 OK, 2 NOTE2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.8.15

README· In the repository, left out of the releaseVignettesYes · 1 · dynamicNEWSYes · 100% structuredCitation fileYes · cites a publicationWebsiteYes · pkgdown

Help pages: 10 (1 internal)includes a package overview page
Examples that run: 80%4 run in a plain check · 1 never run
Exported functions with examples: 43%
Documented parameters: 89%
Return-value docs: 100%
Help pages citing references: 0%

Vignettes (1)

HGNChelper Introduction HTML

How these are measured

Downloads

28.5K

CRAN downloads in the past year

Rank #2,835 · ~78/day · ~2.4K/mo

Releases R versions

Daily download trend is not available in this view yet.

1.7K30 days

5.2K90 days

28.5K1 year

Compare downloads with other packages →

Also on468 r2u6 autocran2.8K conda_forge193 c2d4u

How downloads are counted

Repository

waldronlab/hgnchelper ↗Organization: waldronlab

63Stars

10Forks

4Open issues

0Open PRs

3Releases

151Commits

4Commit identities

u24ca289073

151 commits · Last activity 2026-05-14 · 0% stars, 30d

Responsiveness

How these are sampled

PRs merged (all time): 86%
Median days to close, 50 most recently updated closed issues: 17
Median days to close, 50 most recently updated closed PRs: 3

Stars over time

2025-08-14 · 592026-07-07 · 63

How these are measured

PracticesBeta

8 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/waldronlab/hgnchelper on 2026-10-22.

Continuous integration (2)

GitHub ActionsR CMD check workflow

The R CMD check workflow runs on Linux, macOS and Windows, and on R-devel

Docs source (3)

pkgdown

GitHub Pages site last deployed 2026-05-14 · The repository has a site deploy workflow

pkgdown site last built 2026-05-14

Research and citation (1)

CITATION.cff

Lint, format, editor (1)

RStudio project

Show all practicesHide 1 practice

Git structural (1)

.gitattributes

How this is detected·Detection ruleset v4 (2026-10-20)

Dependencies

Declared dependencies

5 external dependencies (excludes base and recommended)

Installing HGNChelper adds 2 packages (1 with compiled code, 5.7 MB of source tarballs). Heaviest: data.table 5.7 MB, splitstackshape 33 KB.

Depends (3)

R >= 4.1.0methodsutils

Imports (1)

splitstackshape

LinkingTo (0)

none

Suggests (4)

testthat knitr rmarkdown markdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

4direct

2indirect

Imports 4

Depends, Imports or LinkingTo, most downloaded first

GoMiner HTGM2D HTGM4D sccca

How these are counted

Code & Tests

Datasets

People & History

People (4)

Levi Waldron

Author, Maintainer since 0.1 (2012)

Ayush Aggarwal

Author · added in 0.8.14

Sehyun Oh

Author · added in 0.8.14

Markus Riester

Author

Releases (15)

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
0.8.15Latest
record
2024-11-16 · current release · diff ↗
0.8.14
record
2024-05-18 · 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
0.8.1
record
2019-10-24 · diff ↗
R
R 3.6.0 released · 2019-04-26
0.7.1
record
2019-03-06 · diff ↗
0.5.2
record
2018-07-06 · diff ↗ ·
removed 1 export
pattern:^[[:alpha:]]+

added 8 exports
affyToR, checkGeneSymbols, findExcelGeneSymbols, getCurrentHumanMap, getCurrentMouseMap, rToAffy, rToSymbol, symbolToR
R
R 3.5.0 released · 2018-04-23
0.3.6
record
2017-08-30 · diff ↗
0.3.5
record
2017-06-13 · diff ↗

Show 14 earlier eventsHide 14 earlier events

R
R 3.4.0 released · 2017-04-21
0.3.4
record
2017-01-26 · diff ↗
R
R 3.3.0 released · 2016-05-03
R
R 3.2.0 released · 2015-04-16
0.3.1
record
2014-12-04 · diff ↗
R
R 3.1.0 released · 2014-04-10
0.3.0
record
2014-03-22 · diff ↗
0.2.5
record
2013-07-26 · diff ↗
R
R 3.0.0 released · 2013-04-03
0.2.2
record
2013-01-02 · diff ↗ ·
added 1 export
pattern:^[[:alpha:]]+
0.2.1
record
2012-10-07 · diff ↗
0.2
record
2012-08-16 · diff ↗
0.1
record
2012-07-20
R
R 2.15.0 released · 2012-03-30

Package metadata

First published: 2012-07-20
Total releases: 15 / 14 yrs
License: GPL (>= 2.0)
Minimum R: ≥ 4.1.0
Bundled data: 1.2 MB / 2 files
Download size: 1.6 MB

Cite

Cite this package

Run in R for the authors' entry:

citation("HGNChelper")

The package provides a citation file, so citation() returns the authors' own entry.

The repository also keeps a CITATION.cff.

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 HGNChelper version 0.8.15 [Data set]. HJJB, LLC. Data release v2026-10-23. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-23, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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