R Observatory: Metrics for methcon5 version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

methcon5

0.1.0Package record

Identify and Rank CpG DNA Methylation Conservation Along the Human Genome

0packages depend

2.3Kdownloads / year

91.9%test coverage

13/13flavors OK

Overview

About

Maintained by Emil HvitfeldtCRAN page ↗GitHub ↗Issues ↗

Identify and rank CpG DNA methylation conservation along the human genome. Specifically it includes bootstrapping methods to provide ranking which should adjust for the differences in length as without it short regions tend to get higher conservation scores.

Install

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

install.packages("methcon5", 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("EmilHvitfeldt/methcon5")

Development version from EmilHvitfeldt/methcon5. 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-methcon5

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-methcon5

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-methcon5

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: 1.0 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.0

READMEYes · 211 wordsVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 4 (1 internal)
Examples that run: 100%2 run in a plain check
Exported functions with examples: 67%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

2.3K

CRAN downloads in the past year

Rank #20,673 · ~6/day · ~189/mo

Releases R versions

Daily download trend is not available in this view yet.

23230 days

64790 days

2.3K1 year

Compare downloads with other packages →

Also on63 r2u8 autocran

How downloads are counted

Repository

USCbiostats/MethCon5 ↗Organization: USCbiostats

Moved from emilhvitfeldt/methcon5.

0Stars

0Forks

0Open issues

0Open PRs

2Releases

26Commits

2Commit identities

26 commits · Last activity 2025-01-22 · Default branch at 0.1.0.9000, ahead of CRAN 0.1.0 (checked 2026-10-21)

Responsiveness

How these are sampled

PRs merged (all time): not measured
Median days to close, 50 most recently updated closed issues: 3
Median days to close, 50 most recently updated closed PRs: not measured

Releases over time

2019-12-20 · 22026-07-07 · 2

How these are measured

PracticesBeta

6 development-tooling and community-health practices detected across 6 families in the upstream repository

Checks run against github.com/emilhvitfeldt/methcon5 on 2026-10-21.

Continuous integration (1)

Travis CI (config file)

Docs source (1)

README.Rmd

Coverage (1)

Coverage reporting (Codecov)

Reproducibility and dev environment (1)

data-raw/

Show all practicesHide 2 practices

CRAN release process (1)

cran-comments.md

Lint, format, editor (1)

RStudio project

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

Dependencies

Declared dependencies

7 external dependencies (excludes base and recommended)

Installing methcon5 adds 16 packages (10 with compiled code, 5.5 MB of source tarballs). Heaviest: vctrs 1.0 MB, dplyr 902 KB, rlang 766 KB.

Depends (1)

R >= 2.10

Imports (4)

magrittr dplyr purrr rlang

LinkingTo (0)

none

Suggests (3)

ggplot2 testthat covr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (1)

Emil Hvitfeldt

Author, Maintainer since 0.1.0 (2019)

Releases (1)

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
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
0.1.0Latest
record
2019-12-20 · current release
R
R 3.6.0 released · 2019-04-26

Package metadata

First published: 2019-12-20
Total releases: 1 / 7 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 2.10
Bundled data: 23 KB / 1 file
Download size: 148 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("methcon5")

Format

Hvitfeldt, E. (2019). methcon5: Identify and Rank CpG DNA Methylation Conservation Along the Human Genome (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.methcon5

This package has no citation file, so citation() returns this entry built from DESCRIPTION.

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 methcon5 version 0.1.0 [Data set]. HJJB, LLC. Data release v2026-10-25. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-25, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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