R Observatory: Metrics for BOLDconnectR version 1.0.3

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

BOLDconnectR

1.0.3Package record

Retrieve, Transform and Analyze the Barcode of Life Data Systems Data

0packages depend

4.5Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Sameer PadhyeCRAN page ↗

Facilitates retrieval, transformation and analysis of the data from the Barcode of Life Data Systems (BOLD) database https://boldsystems.org/. This package allows both public and private user data to be easily downloaded into the R environment using a variety of inputs such as: IDs (processid, sampleid), BINs, dataset codes, project codes, taxonomy, geography etc. It provides frictionless data conversion into formats compatible with other R-packages and third-party tools, as well as functions for sequence alignment & clustering, biodiversity analysis and spatial mapping.

Install

R (CRAN)Ubuntu (r2u)Fedora (COPR)openSUSE (OBS)

install.packages("BOLDconnectR", 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-boldconnectr

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

# enable the iucar/cran COPR if it is not already present, then install
ls /etc/yum.repos.d/*iucar*cran*.repo >/dev/null 2>&1 \
  || sudo dnf copr enable -y iucar/cran
sudo dnf install -y R-CRAN-BOLDconnectR

RPMs from the iucar/cran COPR, rebuilt from CRAN.

For install.packages() integration in R, also: sudo dnf install R-CoprManager

# add the autoCRAN OBS repo (Tumbleweed) if it is missing, then install
zypper -q lr | grep -qi autoCRAN \
  || sudo zypper addrepo https://download.opensuse.org/repositories/devel:/languages:/R:/autoCRAN/openSUSE_Tumbleweed/devel:languages:R:autoCRAN.repo
sudo zypper install -y R-BOLDconnectR

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed). We list this channel from recorded autoCRAN download activity rather than from a live index of the repository, so treat it as last known rather than guaranteed.

Health

CRAN checks

13OK

CRAN check page ↗

Slowest check: 8.6 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-10-11
ERROR12 OK, 1 ERROR2026-10-10
OK13 OK2026-10-01
ERROR12 OK, 1 ERROR2026-09-29
OK13 OK2026-09-24

Show 12 earlier changesHide 12 earlier changes

ERROR12 OK, 1 ERROR2026-09-18
OK13 OK2026-08-27
ERROR9 OK, 4 ERROR2026-07-24
OK13 OK2026-06-12
ERROR12 OK, 1 ERROR2026-06-08
OK13 OK2026-05-02
ERROR11 OK, 1 ERROR2026-04-25
OK14 OK2026-04-10
ERROR13 OK, 1 ERROR2026-04-09
OK14 OK2026-04-08
ERROR13 OK, 1 ERROR2026-04-07
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 1.0.3

READMEYes · 1,667 wordsVignettesYes · 1 · dynamicNEWSYes · 67% structured · does not mention 1.0.3Citation fileNoWebsitenot declared in DESCRIPTION

Help pages: 23 (10 internal)
Examples that run: 9%1 run in a plain check · 10 never run
Exported functions with examples: 100%
Documented parameters: 98%
Return-value docs: 100%
Help pages citing references: 13%

Vignettes (1)

BOLDconnectR Workflow

How these are measured

Downloads

4.5K

CRAN downloads in the past year

Rank #4,851 · ~12/day · ~375/mo

Releases R versions

Daily download trend is not available in this view yet.

65630 days

1.7K90 days

4.5K1 year

Compare downloads with other packages →

Also on99 r2u50 autocran

How downloads are counted

Dependencies

Declared dependencies

21 external dependencies (excludes base and recommended)

Installing BOLDconnectR adds 142 packages (81 with compiled code, 112 MB of source tarballs). Heaviest: stringi 11 MB, sf 9.3 MB, ggplot2 6.0 MB.

Depends (1)

R >= 4.0.0

Imports (16)

ape BAT data.table dplyr (>= 1.0.1)ggplot2 httr jsonlite mapsmethodsrlang rnaturalearth sf skimr tidyrutilsvegan

LinkingTo (0)

none

Suggests (7)

Biostrings BiocManager DT msa muscle knitr rmarkdown

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

How these are counted

Code & Tests

Datasets

People & History

People (5)

Sameer Padhye

Author, Maintainer since 1.0.0 (2025)

Jireh Agda

Author · added in 1.0.1

Timothy Agda

Author · added in 1.0.1

Liliana Ballesteros-Mejia

Author

Sujeevan Ratnasingham

Author

Releases (4)

Pick two releases to compare their code metrics.

1.0.3Latest
record
2026-09-20 · current release · diff ↗
1.0.2
record
2026-08-20 · diff ↗
1.0.1
record
2026-07-23 · diff ↗
R
R 4.6.0 released · 2026-04-24
1.0.0
record
2025-09-17
R
R 4.5.0 released · 2025-04-11

Package metadata

First published: 2025-09-17
Total releases: 4 / 1 yrs
License: MIT + file LICENSE OSI
Minimum R: ≥ 4.0.0
Bundled data: 17 KB / 2 files
Download size: 1.1 MB

Cite

Cite this package

Run in R for the authors' preferred citation:

citation("BOLDconnectR")

Format

Padhye, S., Agda, J., Agda, T., Ballesteros-Mejia, L., & Ratnasingham, S. (2026). BOLDconnectR: Retrieve, Transform and Analyze the Barcode of Life Data Systems Data (Version 1.0.3) [Computer software]. https://doi.org/10.32614/CRAN.package.BOLDconnectR

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 BOLDconnectR version 1.0.3 [Data set]. HJJB, LLC. Data release v2026-10-19. https://doi.org/10.5281/zenodo.21843040

From data release v2026-10-19, which the citation names so these numbers can be found later. More on citing and the projects behind them.

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