R Observatory: Metrics for EpiSemble version 0.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

EpiSemble

0.1.1Package record

Ensemble Based Machine Learning Approach for Predicting Methylation States

0packages depend

2.6Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Dipro SinhaCRAN page ↗

DNA methylation (6mA) is a major epigenetic process by which alteration in gene expression took place without changing the DNA sequence. Predicting these sites in-vitro is laborious, time consuming as well as costly. This 'EpiSemble' package is an in-silico pipeline for predicting DNA sequences containing the 6mA sites. It uses an ensemble-based machine learning approach by combining Support Vector Machine (SVM), Random Forest (RF) and Gradient Boosting approach to predict the sequences with 6mA sites in it. This package has been developed by using the concept of Chen et al. (2019) doi:10.1093/bioinformatics/btz015.

Install

R (CRAN)Ubuntu (r2u)

install.packages("EpiSemble", 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-episemble

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

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 5.1 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK13 OK2026-06-09
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-02

Show 2 earlier changesHide 2 earlier changes

ERROR11 OK, 1 ERROR2026-04-25
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 0.1.1

READMENoVignettesNoNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 2
Examples that run: 0%2 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 100%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 100%

How these are measured

Downloads

2.6K

CRAN downloads in the past year

Rank #16,501 · ~7/day · ~219/mo

Releases R versions

Daily download trend is not available in this view yet.

26130 days

76690 days

2.6K1 year

Compare downloads with other packages →

Also on72 r2u

How downloads are counted

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Installing EpiSemble adds 194 packages (90 with compiled code, 128 MB of source tarballs). Heaviest: stringi 11 MB, TH.data 8.2 MB, ggplot2 6.0 MB. 1 more not on CRAN is not measured.

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 (0)

none

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

People & History

People (5)

Dipro Sinha

Author, Maintainer since 0.1.0 (2022)

Sunil Archak

Author

Tanwy Dasmandal

Author

Dwijesh Chandra Mishra

Author

Md Yeasin

Author

Releases (2)

Pick two releases to compare their code metrics.

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
unarchivedReturned to CRAN
2023-06-04
0.1.1Latest
record
2023-06-04 · current release · diff ↗
R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2023-04-07
issues were not corrected in time
0.1.0
record
2022-08-22
R
R 4.2.0 released · 2022-04-22

Package metadata

First published: 2022-08-22
Total releases: 2 / 4 yrs
License: GPL-3 OSI
Download size: 1.0 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("EpiSemble")

Format

Sinha, D., Archak, S., Dasmandal, T., Mishra, D. C., & Yeasin, M. (2023). EpiSemble: Ensemble Based Machine Learning Approach for Predicting Methylation States (Version 0.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.EpiSemble

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 EpiSemble version 0.1.1 [Data set]. HJJB, LLC. Data release v2026-10-24. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-24, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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