R Observatory: Metrics for ImprintCapASM version 0.1.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

ImprintCapASM

0.1.1

Allele-Specific Methylation Analysis for Imprinted DMR Diagnostics

0packages depend

371downloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Subham SahaFirst published 2026-07-011 releasesCRAN page ↗GitHub ↗

Provides functions for SNP-phased allele-specific methylation (ASM) analysis across the 41 canonical human imprinted differentially methylated regions (DMRs). Reads are assigned to REF or ALT alleles based on bisulfite-aware SNP detection, enabling diagnosis of imprinting disorders from whole-genome bisulfite sequencing data. https://github.com/19-saha/ImprintCapASM.

Install

R (CRAN)pak (dev)Ubuntu (r2u)

install.packages("ImprintCapASM", repos = "https://cloud.r-project.org/")

Installs the current CRAN release. Prebuilt binaries on Windows and macOS.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("19-saha/ImprintCapASM")

Development version from 19-saha/ImprintCapASM. Installs pak first if it is not already available.

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-imprintcapasm

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: 5.0 min · r-oldrel-windows-x86_64

Code health

Yes

Tests · ratio 0.08

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
OK2026-07-01
6 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 1,849 wordsVignettesYes · dynamicpkgdown siteNoNEWSNoCode of conductNoContributing guideNo

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

Downloads

371

CRAN downloads in the past year

Rank #23,951 · ~1/day · ~31/mo

Releases R versions

Daily download trend is not available in this view yet.

15030 days

37190 days

3711 year

Compare downloads with other packages →

Also on13 r2u

Repository

GitHub ↗ 19-saha/imprintcapasm

Repository practices

Upstream repositoryBeta

Repository github.com/19-saha/imprintcapasm is linked, but repository-practices checks have not run for it yet.

How this is detected·Detection ruleset v1 (2026-07-18)

Dependencies

Declared dependencies

9 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (7)

data.table readxl writexl vcfR ggplot2 Rsamtoolstools

LinkingTo (0)

none

Suggests (3)

testthat knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

People & History

People (3)

Maintainer (1)

Subham Saha

Author, Maintainer, Copyright holder

Authors (3)

Subham Saha

Author, Maintainer, Copyright holder

Frederic Brioude

Author, Funder

Francesco Cecere

Author

Copyright holders (1)

Subham Saha

Author, Maintainer, Copyright holder

Funders (1)

Frederic Brioude

Author, Funder

Package Timeline

1 release. R releases are shown for context.

0.1.1Latest
2026-07-01 · current release
R
R 4.6.0 released · 2026-04-24

Package metadata

First published: 2026-07-01
Total releases: 1 / 1 yrs
License: MIT + file LICENSE OSI
Download size: 1.2 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("ImprintCapASM")

Format

Saha, S., Brioude, F., & Cecere, F. (2026). ImprintCapASM: Allele-Specific Methylation Analysis for Imprinted DMR Diagnostics (Version 0.1.1) [Computer software]. https://doi.org/10.32614/CRAN.package.ImprintCapASM

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 ImprintCapASM version 0.1.1 [Data set]. HJJB, LLC. Data release v2026-08-17. https://doi.org/10.5281/zenodo.21843040

From data release v2026-08-17, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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