R Observatory: Metrics for metevalue version 0.2.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

metevalue

0.2.4

E-Value in the Omics Data Association Studies

0packages depend

2.5Kdownloads / year

60.5%test coverage

13/13checks pass

Overview

About

Maintained by Yifan YangFirst published 2022-10-285 releasesCRAN page ↗

In the omics data association studies, it is common to conduct the p-value corrections to control the false significance. Beyond the P-value corrections, E-value is recently studied to facilitate multiple testing correction based on V. Vovk and R. Wang (2021) doi:10.1214/20-AOS2020. This package provides E-value calculation for DNA methylation data and RNA-seq data. Currently, five data formats are supported: DNA methylation levels using DMR detection tools (BiSeq, DMRfinder, MethylKit, Metilene and other DNA methylation tools) and RNA-seq data. The relevant references are listed below: Katja Hebestreit and Hans-Ulrich Klein (2022) doi:10.18129/B9.bioc.BiSeq; Altuna Akalin et.al (2012) doi:10.18129/B9.bioc.methylKit.

Install

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

install.packages("metevalue", 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-metevalue

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-metevalue

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-metevalue

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

Health

CRAN checks

13OK

Slowest check: 2.1 min · r-devel-windows-x86_64

Code health

Yes

Tests · ratio 0.06

60.5%

Coverage · measured lines

100%

Documentation · exports

3

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

READMENoVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

Examples that run: 86%
Documented parameters: 100%
Return-value docs: 100%
References docs: 9%

Downloads

2.5K

CRAN downloads in the past year

Rank #16,615 · ~7/day · ~211/mo

Releases R versions

Daily download trend is not available in this view yet.

13730 days

64390 days

2.5K1 year

Compare downloads with other packages →

Also on144 r2u27 autocran

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Depends (4)

R >= 3.5.0sqldf psych dplyr

Imports (0)

none

LinkingTo (0)

none

Suggests (6)

rmarkdown prettydoc knitr ggplot2 tidyr testthat (>= 3.0.0)

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (3)

Maintainer (1)

Yifan Yang

Author, Maintainer, Copyright holder

Authors (3)

Yifan Yang

Author, Maintainer, Copyright holder

Haoyuan Liu

Author

Xiaoqing Pan

Author

Copyright holders (1)

Yifan Yang

Author, Maintainer, Copyright holder

Package Timeline

5 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
0.2.4Latest
2023-05-26 · current release · diff ↗
0.2.2
2023-05-18 · diff ↗
R
R 4.3.0 released · 2023-04-21
0.1.14
2023-03-28 · diff ↗
0.1.13
2022-11-21 · diff ↗
0.1.10
2022-10-28
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-10-28
Total releases: 5 / 4 yrs
License: Apache License (>= 2)
Minimum R: ≥ 3.5.0
Bundled data: 1.6 MB / 9 files
Download size: 1.7 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("metevalue")

Format

Yang, Y., Liu, H., & Pan, X. (2023). metevalue: E-Value in the Omics Data Association Studies (Version 0.2.4) [Computer software]. https://doi.org/10.32614/CRAN.package.metevalue

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 metevalue version 0.2.4 [Data set]. HJJB, LLC. Data release v2026-08-22. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-22, which the citation names so these numbers can be found later. More on citing and the projects behind them.

Report a problem with this page →