R Observatory: Metrics for BioMedR version 1.2.1

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

This package was removed from CRAN on 2021-11-17. Its history is shown below.

Reason: check problems were not corrected in time

Details below reflect version 1.2.1, its last release before removal.

BioMedR

1.2.1Package record

Generating Various Molecular Representations for Chemicals, Proteins, DNAs, RNAs and Their Interactions

0packages depend

–downloads / year

–test coverage

–flavors OK

Overview

About

Maintained by Min-feng ZhuCRAN page ↗GitHub ↗

Calculating 293 chemical descriptors and 14 kinds of chemical fingerprints, 9920 protein descriptors based on protein sequences, more than 6000 DNA/RNA descriptors from nucleotide sequences, and six types of interaction descriptors using three different combining strategies.

Install

BioconductorR (source archive)pak (dev)

BiocManager::install("BioMedR")

Installs the current Bioconductor release. Requires the BiocManager package.

url <- "https://cran.r-project.org/src/contrib/Archive/BioMedR/BioMedR_1.2.1.tar.gz"
pkgFile <- "BioMedR_1.2.1.tar.gz"
download.file(url, pkgFile)
install.packages(pkgFile, type = "source", repos = NULL)

This package is no longer on CRAN, so install.packages() cannot fetch it by name. This downloads the last archived source (1.2.1) and builds it locally. Install its dependencies first, and note that building from source needs the usual compiler toolchain.

if (!requireNamespace("pak", quietly = TRUE))
  install.packages("pak", repos = "https://cloud.r-project.org/")
pak::pak("wind22zhu/BioMedR")

Development version from wind22zhu/BioMedR. Installs pak first if it is not already available.

Health

CRAN checks

CRAN check results are not tracked yet.

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.2.1

READMEYes · 661 wordsVignettesYes · 1 · dynamicNEWSNoCitation fileNoWebsitenot declared in DESCRIPTION

Help pages: 153 (2 internal)includes a package overview page
Examples that run: 89%134 run in a plain check · 16 only when donttest examples are enabled (R CMD check --as-cran) · 1 hold no code
Exported functions with examples: 100%
Documented parameters: 97%
Return-value docs: 100%
Help pages citing references: 34%

How these are measured

Downloads

BioMedR Releases R versions

Daily download trend is not available in this view yet.

Compare downloads with other packages →

How downloads are counted

Dependencies

Declared dependencies

12 external dependencies (excludes base and recommended)

Depends (0)

none

Imports (15)

RCurl rjson rcdk Biostrings GOSemSimMASSChemmineR fmcsR pls randomForestutilsstatsgraphicsmethodsorg.Hs.eg.db

LinkingTo (0)

none

Suggests (2)

RUnit BiocGenerics

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

–indirect (not tracked)

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (3)

Min-feng Zhu

Contributor

Jie Dong

Contributor

Dong-sheng Cao

Contributor

Maintainer since 1.1.1 (2019)

Releases (3)

Pick two releases to compare their code metrics.

R
R 4.2.0 released · 2022-04-22
archivedRemoved from CRAN
2021-11-17
check problems were not corrected in time
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
1.2.1
record
2019-07-05 · diff ↗ ·
added 1 export
clusterPlotSOMmap
R
R 3.6.0 released · 2019-04-26
1.1.2
record
2019-04-04 · diff ↗
1.1.1
record
2019-01-15
R
R 3.5.0 released · 2018-04-23

Package metadata

First published: 2019-01-15
Total releases: 3 / 7 yrs
License: GPL (>= 2) OSI
Bundled data: 573 KB / 40 files

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("BioMedR")

Format

Zhu, M., Dong, J., & Cao, D. (n.d.). BioMedR: Generating Various Molecular Representations for Chemicals, Proteins, DNAs, RNAs and Their Interactions (Version 1.2.1) [Computer software]. Retrieved October 22, 2026, from https://CRAN.R-project.org/package=BioMedR

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 BioMedR version 1.2.1 [Data set]. HJJB, LLC. Data release v2026-10-21. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-21, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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