R Observatory: Metrics for GB5mcPred version 0.1.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

GB5mcPred

0.1.0

Gradient Boosting Algorithm for Predicting Methylation States

0packages depend

2.3Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Dipro SinhaFirst published 2023-07-111 releasesCRAN page ↗

DNA methylation of 5-methylcytosine (5mC) is the result of a multi-step, enzyme-dependent process. Predicting these sites in-vitro is laborious, time consuming as well as costly. This ' Gb5mC-Pred ' package is an in-silico pipeline for predicting DNA sequences containing the 5mC sites. It uses a machine learning approach which uses Stochastic Gradient Boosting approach for prediction of the sequences with 5mC sites. This package has been developed by using the concept of Navarez and Roxas (2022) doi:10.1109/TCBB.2021.3082184.

Install

R (CRAN)Ubuntu (r2u)

install.packages("GB5mcPred", 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-gb5mcpred

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: 5.3 min · r-release-macos-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

19

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
OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-08
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-05-11
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Show 4 earlier snapshots

WARNING2026-05-10
12 OK · 0 NOTE · 1 WARNING · 0 ERROR · 0 FAILURE
OK2026-05-02
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-04-25
11 OK · 0 NOTE · 0 WARNING · 1 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

2.3K

CRAN downloads in the past year

Rank #15,687 · ~6/day · ~188/mo

Releases R versions

Daily download trend is not available in this view yet.

18030 days

67090 days

2.3K1 year

Compare downloads with other packages →

Also on143 r2u

Dependencies

Declared dependencies

18 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (19)

statsdevtools tidyverse seqinr Biostrings splitstackshape entropy party stringr tibble doParallelparallele1071 caret randomForest gbm foreach ftrCOOL iterators

LinkingTo (0)

none

Suggests (1)

testthat

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (5)

Maintainer (1)

Dipro Sinha

Author, Maintainer

Authors (5)

Dipro Sinha

Author, Maintainer

Sunil Archak

Author

Tanwy Dasmandal

Author

Dwijesh Chandra Mishra

Author

Md Yeasin

Author

Package Timeline

1 release. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
0.1.0Latest
2026-03-10 · current release
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2023-07-11
Total releases: 1 / 3 yrs
License: GPL-3 OSI
Download size: 2.8 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("GB5mcPred")

Format

Sinha, D., Archak, S., Dasmandal, T., Mishra, D. C., & Yeasin, M. (2023). GB5mcPred: Gradient Boosting Algorithm for Predicting Methylation States (Version 0.1.0) [Computer software]. https://doi.org/10.32614/CRAN.package.GB5mcPred

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 GB5mcPred version 0.1.0 [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.

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