vioplot

Development version of vioplot R package (CRAN maintainer)

https://github.com/tomkellygenetics/vioplot

Science Score: 44.0%

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CITATION.cff file
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Found codemeta.json file
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Scientific vocabulary similarity
Low similarity (14.2%) to scientific vocabulary

Keywords

boxplot colours cran customisation dataviz formula package plotting r r-package rstats violin-plot violinplot vioplot

Last synced: 6 months ago · JSON representation ·

Repository

Development version of vioplot R package (CRAN maintainer)

Basic Info

Host: GitHub
Owner: TomKellyGenetics
License: other
Language: R
Default Branch: master
Homepage: https://CRAN.R-project.org/package=vioplot
Size: 4.21 MB

Statistics

Stars: 28
Watchers: 3
Forks: 3
Open Issues: 2
Releases: 10

Topics

boxplot colours cran customisation dataviz formula package plotting r r-package rstats violin-plot violinplot vioplot

Created almost 8 years ago · Last pushed 12 months ago

Metadata Files

Readme Changelog License Citation

vioplot

Version 0.5.1

Violin Plots in R

This package allows extensive customisation of violin plots.

Installation

To get the current released version from CRAN:

R install.packages("vioplot")

To get the development version from github:

```R

install.packages("devtools")

devtools::install_github("TomKellyGenetics/vioplot", ref = "dev") ```

Running

See the relevant vignette for more details:

Customising colour and shape with scalar inputs or vectors applied separately to each violin.

https://rawgit.com/TomKellyGenetics/vioplot/vignettes/vignettes/violin_customisation.html

Formula input enabled with S3 methods.

https://rawgit.com/TomKellyGenetics/vioplot/vignettes/vignettes/violin_formulae.html

Control of violin area for proportional widths

https://rawgit.com/TomKellyGenetics/vioplot/vignettes/vignettes/violin_area.html

Control of the y-axis including disabling labels and log-scale

https://rawgit.com/TomKellyGenetics/vioplot/vignettes/vignettes/violin_ylog.html

Split violins to directly compare paired data.

https://rawgit.com/TomKellyGenetics/vioplot/vignettes/vignettes/violin_split.html

Functionality

vioplot (0.3) is backwards-compatible with vioplot (0.2). The following features are supported:

vioplot() generates a violin plot by plotting a violin for each group of variables.
vioplot() also takes additional arguments to specify main, sub, xlab, and ylab as used in plot or title. Graphical parameters can be passed to plotting parameters.
vioplot() can take vectorised forms of colour variables col, border, and rectCol to modify the colours separately for each violin respectively. This also applies to a new variable lineCol to modify the colour of the boxplots.
vioplot.formula() is enabled to take formula and dataframe inputs as used for boxplot and stats operations. The default axes labels are the variable names used for the formula and names are factor levels.
additional areaEqual, plotCentre and side options enables further customisation.

See the NEWS.md file for more detail on added features in the 0.3 release.

Development and sources

For development history of version 0.3.0 prior to package documentation, see the original repo: https://github.com/TomKellyGenetics/R-violin-plot/commits?author=TomKellyGenetics

Modifications inspired by the following StackOverFlow threads and GitHub Gists:

http://stackoverflow.com/questions/14975853/how-can-i-create-violin-plot-in-different-colours
http://stackoverflow.com/questions/19416768/vioplot-r-how-to-set-axis-labels
http://stackoverflow.com/questions/20250063/axis-titles-on-vioplot
http://stackoverflow.com/questions/22410606/violin-plot-with-list-input
https://gist.github.com/mbjoseph/5852613

Attribution

This repository is a proposed submission for an updated version of the vioplot originally released by Daniel Adler (University of Göttingen, Germany) on CRAN. This package has been orphaned on CRAN and is no longer actively maintained. I acknowledge with contributions of Daniel Adler as the original developer and Tom Elliot (University of Auckland, New Zealand) for a pull request and welcome further contributions to improve or maintain this package.

This package update was developed and released open-source (in accordance with the original package BSD License) while as a PhD candidate at the University of Otago (Dunedin, New Zealand). I can be contacted at my present address and affiliation is (RIKEN Centre for Integrative Medical Sciences, Yokohama, Japan) at .

Citation

The following information can be retrieved from within an R session by using citation(vioplot). Please acknowledge as follows if features included in this version are used.

To cite the enhanced vioplot package in publications use:

Daniel Adler and S. Thomas Kelly (2025). vioplot: violin plot. R package version 0.5.1 https://github.com/TomKellyGenetics/vioplot

A BibTeX entry for LaTeX users is

@Manual{, title = {vioplot: violin plot}, author = {Daniel Adler, S. Thomas Kelly, Tom Elliot, and Jordan Adamson}, year = {2025}, note = {R package version 0.5.1}, url = {https://github.com/TomKellyGenetics/vioplot}, }

Please also acknowledge the original package: citation("vioplot")

Owner

Name: Tom Kelly
Login: TomKellyGenetics
Kind: user
Location: Akiruno, Tokyo, Japan
Company: RIKEN IMS; H.U. Group @hugp-ri

Website: https://orcid.org/0000-0003-3904-6690
Twitter: tomkxy
Repositories: 138
Profile: https://github.com/TomKellyGenetics

Bioinformatician. PhD 2014-2017: @mikblacklab Otago Uni. Postdoc 2018-2021: @minoda-lab RIKEN. The @carpentries. Genomics | Health | Math | Stats | AWS Dev

Citation (CITATION.cff)

cff-version: 1.2.0
message: "If you use this software, please cite it as below."
authors:
- family-names: "Adler"
  given-names: "Daniel"
  affiliation: "University of Göttingen, Germany"
  orcid: "https://orcid.org/0000-0000-0000-0000"
- family-names: "Kelly"
  given-names: "S. Thomas"
  affiliation: "University of Otago, New Zealand; RIKEN IMS, Japan"
  orcid: "https://orcid.org/0000-0003-3904-6690"
- family-names: "Elliot"
  given-names: "Tom"
  affiliation: "University of Auckland, New Zealand"
- family-names: "Adamson"
  given-names: "Jordan"
  affiliation: "Leipzig University, Germany"
title: "vioplot: violin plot"
version: 0.5.1
date-released: 2025-02-24
url: "https://github.com/TomKellyGenetics/vioplot"

GitHub Events

Total

Create event: 1
Release event: 1
Issues event: 2
Watch event: 2
Issue comment event: 2
Push event: 2

Last Year

Create event: 1
Release event: 1
Issues event: 2
Watch event: 2
Issue comment event: 2
Push event: 2

Committers

Last synced: over 2 years ago

All Time

Total Commits: 276
Total Committers: 6
Avg Commits per committer: 46.0
Development Distribution Score (DDS): 0.181

Past Year

Commits: 14
Committers: 2
Avg Commits per committer: 7.0
Development Distribution Score (DDS): 0.071

Top Committers

Name	Email	Commits
TomKellyGenetics	t**s@g**m	226
TomKellyGenetics	t**t@g**m	44
Tom Elliott	t**z@g**m	2
TomKellyGenetics	t**y@p**z	2
Jordan Adamson	j**n@g**m	1
Tom Kelly	t**m@t**p	1

Committer Domains (Top 20 + Academic)

tkx412.genome.gsc.riken.jp: 1 postgrad.otago.ac.nz: 1

Issues and Pull Requests

Last synced: 6 months ago

All Time

Total issues: 20
Total pull requests: 1
Average time to close issues: 3 months
Average time to close pull requests: 29 days
Total issue authors: 11
Total pull request authors: 1
Average comments per issue: 2.5
Average comments per pull request: 4.0
Merged pull requests: 1
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 2
Pull requests: 0
Average time to close issues: N/A
Average time to close pull requests: N/A
Issue authors: 2
Pull request authors: 0
Average comments per issue: 0.0
Average comments per pull request: 0
Merged pull requests: 0
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

Derek-Jones (7)
Jadamso (2)
mmahmoudian (2)
TomKellyGenetics (2)
Frauke-Hellwig (1)
pierre-haessig (1)
SpiegelE (1)
cjh57-cornell (1)
csoneson (1)
ekstroem (1)
GCAT01 (1)

Pull Request Authors

Jadamso (1)

Top Labels

Issue Labels

documentation (3) enhancement (1) help wanted (1) bug (1)

Pull Request Labels

Packages

Total packages: 1
Total downloads:
- cran 6,277 last-month
Total docker downloads: 188,691

Total dependent packages: 11
Total dependent repositories: 49
Total versions: 12
Total maintainers: 1

cran.r-project.org: vioplot

Violin Plot

Homepage: https://github.com/TomKellyGenetics/vioplot
Documentation: http://cran.r-project.org/web/packages/vioplot/vioplot.pdf
License: BSD_3_clause + file LICENSE
Latest release: 0.5.1
published 12 months ago

Versions: 12
Dependent Packages: 11
Dependent Repositories: 49
Downloads: 6,277 Last month
Docker Downloads: 188,691

Rankings

Dependent repos count: 3.6%

Downloads: 4.7%

Dependent packages count: 5.0%

Average: 10.1%

Stargazers count: 10.2%

Forks count: 14.2%

Docker downloads count: 23.1%

Maintainers (1)

tomkellygenetics@gmail.com

Last synced: 6 months ago

Dependencies

DESCRIPTION cran

sm * depends
zoo * depends
RColorBrewer * suggests
base * suggests
ggplot2 * suggests
knitr * suggests
rmarkdown * suggests
testthat * suggests

vioplot

Science Score: 44.0%

Keywords

Repository

Basic Info

Statistics

Topics

Metadata Files

README.md

vioplot

Version 0.5.1

Violin Plots in R

Installation

install.packages("devtools")

Running

Functionality

Development and sources

Attribution

Citation

Owner

Citation (CITATION.cff)

GitHub Events

Total

Last Year

Committers

All Time

Past Year

Top Committers

Committer Domains (Top 20 + Academic)

Issues and Pull Requests

All Time

Past Year

Top Authors

Issue Authors

Pull Request Authors

Top Labels

Issue Labels

Pull Request Labels

Packages

cran.r-project.org: vioplot

Rankings

Maintainers (1)

Dependencies