R Observatory: Metrics for D3GB version 2.0

Balamuta, James Joseph

doi:10.5281/zenodo.21843040

D3GB

2.0Package record

Interactive Genome Browser

0packages depend

6.1Kdownloads / year

–test coverage

13/13flavors OK

Overview

About

Maintained by Carlos PrietoCRAN page ↗Website ↗

Creates interactive genome browser. It joins the data analysis power of 'R' and the visualization libraries of 'JavaScript' in one package. Barrios, D. & Prieto, C. (2017) doi:10.1089/cmb.2016.0213.

Install

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

install.packages("D3GB", 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-d3gb

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-D3GB

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-D3GB

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: 1.4 min · r-oldrel-windows-x86_64

Status changes

OK13 OK2026-08-05
NOTE12 OK, 1 NOTE2026-08-01
OK14 OK2026-03-10

Advisories

none known

How this is measured·How advisories are found

Documentation

In release 2.0

READMENoVignettesNoNEWSNoCitation fileYes · cites a publicationWebsiteYes

Help pages: 18includes a package overview page
Examples that run: 56%5 run in a plain check · 4 only when donttest examples are enabled (R CMD check --as-cran)
Exported functions with examples: 53%
Documented parameters: 100%
Return-value docs: 100%
Help pages citing references: 0%

How these are measured

Downloads

6.1K

CRAN downloads in the past year

Rank #9,539 · ~17/day · ~510/mo

Releases R versions

Daily download trend is not available in this view yet.

33930 days

1K90 days

6.1K1 year

Compare downloads with other packages →

Also on77 r2u16 autocran

How downloads are counted

Dependencies

Declared dependencies

3 external dependencies (excludes base and recommended)

Installing D3GB adds 16 packages (10 with compiled code, 8.4 MB of source tarballs). Heaviest: RSQLite 4.2 MB, vctrs 1.0 MB, rlang 766 KB.

Depends (1)

R >= 3.0.0

Imports (3)

RSQLite DBI base64enc

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 (2)

Carlos Prieto

David Barrios

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
unarchivedReturned to CRAN
2024-05-30
2.0Latest
record
2024-05-30 · current release · diff ↗ ·
added 2 exports
genome_createServerMode, genome_createLocalMode
R
R 4.4.0 released · 2024-04-24
R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2022-09-04
policy violation On Internet access
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
R
R 4.0.0 released · 2020-04-24
R
R 3.6.0 released · 2019-04-26
R
R 3.5.0 released · 2018-04-23
R
R 3.4.0 released · 2017-04-21
1.1
record
2017-04-11
R
R 3.3.0 released · 2016-05-03

Package metadata

First published: 2017-04-11
Total releases: 2 / 9 yrs
License: GPL-2 | GPL-3 OSI · relicensed from CC BY-NC-SA 4.0 in 2.0
Minimum R: ≥ 3.0.0
Download size: 559 KB

Cite

Cite this package

Run in R for the authors' entry:

citation("D3GB")

The package provides a citation file, so citation() returns the authors' own entry.

It points to 10.1089/cmb.2016.0213.

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 D3GB version 2.0 [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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