volcano3D

2.0.11

3D Volcano Plots and Polar Plots for Three-Class Data

0packages depend

4.1Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Katriona GoldmannFirst published 2020-06-048 releasesCRAN page ↗GitHub ↗

Generates interactive plots for analysing and visualising three-class high dimensional data. It is particularly suited to visualising differences in continuous attributes such as gene/protein/biomarker expression levels between three groups. Differential gene/biomarker expression analysis between two classes is typically shown as a volcano plot. However, with three groups this type of visualisation is particularly difficult to interpret. This package generates 3D volcano plots and 3-way polar plots for easier interpretation of three-class data.

Install

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

install.packages("volcano3D", 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("KatrionaGoldmann/volcano3D")

Development version from KatrionaGoldmann/volcano3D. 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-volcano3d

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

# 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-volcano3D

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-volcano3D

RPMs auto-built from CRAN on openSUSE OBS (Tumbleweed).

Health

CRAN checks

13OK

Slowest check: 4.6 min · r-oldrel-windows-x86_64

Code health

None

Tests · ratio 0.00

not tracked

Coverage

100%

Documentation · exports

Dependencies · direct

Check history

OK2026-06-09
13 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
ERROR2026-06-07
12 OK · 0 NOTE · 0 WARNING · 1 ERROR · 0 FAILURE
OK2026-03-10
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMENoVignettesYes · dynamicpkgdown siteNoNEWSYes · 100% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 99%
Return-value docs: 100%
References docs: 38%

Downloads

4.1K

CRAN downloads in the past year

Rank #10,450 · ~11/day · ~345/mo

Releases R versions

Daily download trend is not available in this view yet.

36530 days

1K90 days

4.1K1 year

Compare downloads with other packages →

Also on133 r2u18 autocran29 c2d4u

Repository

GitHub ↗ katrionagoldmann/volcano3d

38Stars

7Forks

1Open issues

0Open PRs

5Releases

308Commits

10Contributors

plotlyinteractivedifferential-expressiondifferential-expression-analysispackagevolcanoplotsbioinformaticscran

308 commits · Last activity 2026-01-14

Repository practices

Upstream repositoryBeta

3 development-tooling and community-health practices detected across 2 families in the upstream repository

Checks run against github.com/katrionagoldmann/volcano3d on 2026-07-26.

Continuous integration (1)

GitHub Actions

CRAN release process (2)

cran-comments.mdCRAN-SUBMISSION

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

Dependencies

Declared dependencies

17 external dependencies (excludes base and recommended)

Depends (1)

R >= 3.5

Imports (9)

plotly ggplot2 ggpubr htmlwidgets magrittrmethodsRfast rlang matrixTests

LinkingTo (0)

none

Suggests (9)

DESeq2 edgeR limma qvalue SummarizedExperiment knitr rmarkdown usethis easylabel

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

0direct

0indirect

Nothing depends on this yet.

Code & Tests

Datasets

People & History

People (2)

Maintainer (1)

Katriona Goldmann

Author, Maintainer

Authors (2)

Katriona Goldmann

Author, Maintainer

Myles Lewis

Author

Package Timeline

8 releases. Pick two to compare their code metrics. R releases are shown for context.

R
R 4.6.0 released · 2026-04-24
2.0.11Latest
2026-01-15 · current release · diff ↗
unarchivedReturned to CRAN
2026-01-15
archivedRemoved from CRAN
2025-12-17
issues were not corrected in time
R
R 4.5.0 released · 2025-04-11
R
R 4.4.0 released · 2024-04-24
2.0.9
2023-05-17 · diff ↗
unarchivedReturned to CRAN
2023-05-17
R
R 4.3.0 released · 2023-04-21
archivedRemoved from CRAN
2023-04-10
policy violation On Internet access to 'travis-ci.org'
2.0.8
2022-09-23 · diff ↗
2.0.0
2022-07-06 · diff ↗
R
R 4.2.0 released · 2022-04-22
R
R 4.1.0 released · 2021-05-18
1.2.0
2021-03-31 · diff ↗
1.1.0
2021-02-22 · diff ↗

Show 3 earlier events

1.0.1
2020-06-26 · diff ↗
1.0.0
2020-06-04
R
R 4.0.0 released · 2020-04-24

Package metadata

First published: 2020-06-04
Total releases: 8 / 6 yrs
License: GPL-2 OSI
Minimum R: ≥ 3.5
Bundled data: 305 KB / 1 file
Download size: 2.5 MB
Installed size: not tracked yet
With dependencies: not tracked yet

Appears in task views

Genomics, Proteomics, Metabolomics, Transcriptomics, and Other Omics

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