R Observatory: Metrics for OpEnCAST version 0.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

OpEnCAST

0.1.1

Optimized Ensemble Model for C and A Methylation Search in Plant

0packages depend

3.1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Abhik SarkarFirst published 2026-01-081 releasesCRAN page ↗

DNA methylation is an important epigenetic process that regulates gene activity through chemical modifications of DNA without changing its sequence. 'OpEnCAST' is a plant-specific ensemble-based prediction package that identifies 4mC, 5mC and 6mA methylation sites directly from DNA sequences. It combines multiple machine learning algorithms trained on monocot (Oryza sp.) and dicot (Arabidopsis sp.) reference models to deliver accurate predictions. This methodology is being inspired by the ensemble algorithm for methylation prediction developed by Wang et al. (2022) doi:10.1186/s12859-022-04756-1.

Install

R (CRAN)Ubuntu (r2u)

install.packages("OpEnCAST", 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-opencast

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

Health

CRAN checks

13OK

Slowest check: 2.8 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

7

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

READMENoVignettesNopkgdown siteNoNEWSNoCode of conductNoContributing guideNo

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

Downloads

3.1K

CRAN downloads in the past year

Rank #9,960 · ~9/day · ~260/mo

Releases R versions

Daily download trend is not available in this view yet.

15630 days

95890 days

3.1K1 year

Compare downloads with other packages →

Also on47 r2u

Dependencies

Declared dependencies

11 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (7)

Biostrings seqinr stringr tibble entropy ftrCOOLstats

LinkingTo (0)

none

Suggests (5)

caret kernlab ranger xgboost gbm

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (6)

Maintainer (1)

Abhik Sarkar

Author, Maintainer

Authors (6)

Abhik Sarkar

Author, Maintainer

Sunil Archak

Author

Dwijesh Chandra Mishra

Author

Sneha Murmu

Author

Dipro Sinha

Author

Md Yeasin

Author

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.1Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2026-01-08
Total releases: 1 / 1 yrs
License: GPL-3 OSI
Download size: 8.6 KB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("OpEnCAST")

Format

Sarkar, A., Archak, S., Mishra, D. C., Murmu, S., Sinha, D., & Yeasin, M. (2026). OpEnCAST: Optimized Ensemble Model for C and A Methylation Search in Plant (Version 0.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.OpEnCAST

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 OpEnCAST version 0.1.1 [Data set]. HJJB, LLC. Data release v2026-08-16. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-16, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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