R Observatory: Metrics for EMAS version 0.2.4

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

EMAS

0.2.4Package record

Epigenome-Wide Mediation Analysis Study

0packages depend

5.6Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Xiuquan NieCRAN page ↗

DNA methylation is essential for human, and environment can change the DNA methylation and affect body status. Epigenome-Wide Mediation Analysis Study (EMAS) can find potential mediator CpG sites between exposure (x) and outcome (y) in epigenome-wide. For more information on the methods we used, please see the following references: Tingley, D. (2014) doi:10.18637/jss.v059.i05, Turner, S. D. (2018) doi:10.21105/joss.00731, Rosseel, D. (2012) doi:10.18637/jss.v048.i02.

Install

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

install.packages("EMAS", 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-emas

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-EMAS

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-EMAS

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: 4.4 min · r-release-macos-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.2.4

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Description cites a JSS article

Help pages: 6
Examples that run: 0%3 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 89%
Return-value docs: 100%
Help pages citing references: 33%

How these are measured

Downloads

5.6K

CRAN downloads in the past year

Rank #9,627 · ~15/day · ~470/mo

Releases R versions

Daily download trend is not available in this view yet.

36130 days

1K90 days

5.6K1 year

Compare downloads with other packages →

Also on142 r2u5 autocran

How downloads are counted

Dependencies

Declared dependencies

4 external dependencies (excludes base and recommended)

Installing EMAS adds 70 packages (38 with compiled code, 70 MB of source tarballs). Heaviest: stringi 11 MB, ggplot2 6.0 MB, data.table 5.7 MB.

Depends (1)

R >= 4.1.0

Imports (5)

mediationparallelmultilevel ggplot2 lavaan

LinkingTo (0)

none

Suggests (0)

none

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 (2)

Xiuquan Nie

Mengyi Wang

Contributor, Reviewer

Listed in earlier versions (1)

Weihong Chen

no longer listed · 0.1.0 to 0.2.2

Releases (6)

Pick two releases to compare their code metrics.

R
R 4.6.0 released · 2026-04-24
0.2.4Latest
record
2025-12-21 · current release · diff ↗ ·
removed 1 export
EMAS.manhattan
0.2.3
record
2025-09-04 · diff ↗
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
0.2.2
record
2022-08-11 · diff ↗
0.2.1
record
2022-06-19 · diff ↗ ·
added 1 export
Emas.parallel
0.2.0
record
2022-06-06 · diff ↗ ·
added 1 export
EMAS.volcano
0.1.0
record
2022-05-19
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-05-19
Total releases: 6 / 4 yrs
License: GPL-3 OSI
Minimum R: ≥ 4.1.0
Bundled data: 184 KB / 3 files
Download size: 195 KB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("EMAS")

Format

Nie, X., & Wang, M. (2025). EMAS: Epigenome-Wide Mediation Analysis Study (Version 0.2.4) [Computer software]. https://doi.org/10.32614/CRAN.package.EMAS

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 EMAS version 0.2.4 [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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