pavo

tools for the analysis of color data in R

https://github.com/rmaia/pavo

Science Score: 49.0%

This score indicates how likely this project is to be science-related based on various indicators:

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CITATION.cff file
✓
codemeta.json file
Found codemeta.json file
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.zenodo.json file
Found .zenodo.json file
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DOI references
Found 2 DOI reference(s) in README
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Academic publication links
✓
Committers with academic emails
6 of 19 committers (31.6%) from academic institutions
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Institutional organization owner
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JOSS paper metadata
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Scientific vocabulary similarity
Low similarity (18.0%) to scientific vocabulary

Keywords

Keywords from Contributors

package-creation reproducibility

Last synced: 7 months ago · JSON representation

Repository

tools for the analysis of color data in R

Basic Info

Host: GitHub
Owner: rmaia
License: gpl-2.0
Language: R
Default Branch: master
Homepage: http://pavo.colrverse.com
Size: 157 MB

Statistics

Stars: 77
Watchers: 7
Forks: 17
Open Issues: 29
Releases: 18

Topics

Created about 14 years ago · Last pushed 7 months ago

Metadata Files

Readme Changelog Contributing License Code of conduct

`pavo`

An `R` package for the spectral and spatial analysis of color patterns

Currently maintained by Thomas White and Hugo Gruson.

About

pavo is an R package developed with the goal of establishing a flexible and integrated workflow for working with spectral and spatial colour data. It includes functions that take advantage of new data classes to work seamlessly from importing raw spectra and images, to visualisation and analysis. It provides flexible ways to input spectral data from a variety of equipment manufacturers, process these data, extract variables, and produce publication-quality figures.

pavo was written with the following workflow in mind:

Organise data by importing and processing spectra and images (e.g., to remove noise, negative values, smooth curves, etc.).
Analyse the resulting files, using spectral analyses of shape (hue, saturation, brightness), visual models based on perceptual data, and/or spatial adjacency and boundary strength analyses.
Visualise the output, with multiple options provided for exploration, presentation, and analysis.

Need more information, or help with the package?

Take a look at the package documentation for detailed examples and discussion.
Check out the latest news for changes and updates.
Need help or advice and can't find what you're looking for? Head over to the colRverse discussion board and feel free to post a message.
If all else fails (or you don't have a GitHub account), email Tom!

Citing pavo

The manuscript describing the current iteration of the package has been published and is free to access:

Maia R., Gruson H., Endler J.A., and White T.E. 2019 pavo 2: New tools for the spectral and spatial analysis of colour in R. Methods in Ecology and Evolution, 10(7):1097‑1107.

Install

This is the development page for pavo. The stable release is available from CRAN. Simply use install.packages("pavo") to install.

If you want to install the bleeding edge version of pavo, you can:

use the remotes package:

```r

install.packages("remotes")

remotes::install_github("rmaia/pavo") ```

download files from GitHub and install using $R CMD INSTALL or, from within R:

r install.packages(path, type = "source", repos = NULL)

Owner

Name: Rafael Maia
Login: rmaia
Kind: user
Location: Austin, TX
Company: Data Scientist, Apple

Website: http://www.rafaelmaia.net
Repositories: 3
Profile: https://github.com/rmaia

GitHub Events

Total

Issues event: 2
Watch event: 8
Delete event: 6
Issue comment event: 5
Push event: 29
Pull request review comment event: 4
Pull request event: 7
Pull request review event: 8
Fork event: 1
Create event: 7

Last Year

Issues event: 2
Watch event: 8
Delete event: 6
Issue comment event: 5
Push event: 29
Pull request review comment event: 4
Pull request event: 7
Pull request review event: 8
Fork event: 1
Create event: 7

Committers

Last synced: over 2 years ago

All Time

Total Commits: 2,769
Total Committers: 19
Avg Commits per committer: 145.737
Development Distribution Score (DDS): 0.727

Past Year

Commits: 78
Committers: 6
Avg Commits per committer: 13.0
Development Distribution Score (DDS): 0.397

Top Committers

Name	Email	Commits
Thomas White	t**6@g**m	757
Hugo Gruson	h**n@p**m	746
rmaia	r**2@z**u	700
Rafael Maia	r**a@R**l	140
Chad Eliason	c**f@g**m	133
Pierre-Paul Bitton	b**p@u**a	105
Hugo Gruson	B****o	55
Chad Eliason	c**6@z**u	53
Chad Eliason	c**0@g**m	26
Hugo Gruson	h**n@o**g	22
Chad Eliason	c**n@C**l	11
Thomas White	t**e@1**u	8
Chad Eliason	c**n@w**u	3
Thomas White	t**e@1**u	3
Chad Eliason	c**n@w**u	2
Thomas White	t**e@t**u	2
Chad Eliason	c**n@w**u	1
Henrik Bengtsson	hb@a****g	1
Duncan Murdoch	m**n@g**m	1

Committer Domains (Top 20 + Academic)

zips.uakron.edu: 2 aroma-project.org: 1 wireless-10-145-125-179.public.utexas.edu: 1 thomass-air.staff.wireless.sydney.edu.au: 1 wireless-10-145-232-145.public.utexas.edu: 1 10-0-0-4.tpgi.com.au: 1 wireless-10-145-119-1.public.utexas.edu: 1 10-0-0-6.tpgi.com.au: 1 openmailbox.org: 1 uwindsor.ca: 1

Issues and Pull Requests

Last synced: 7 months ago

All Time

Total issues: 56
Total pull requests: 71
Average time to close issues: 10 months
Average time to close pull requests: 3 months
Total issue authors: 9
Total pull request authors: 4
Average comments per issue: 3.09
Average comments per pull request: 1.62
Merged pull requests: 56
Bot issues: 0
Bot pull requests: 0

Past Year

Issues: 1
Pull requests: 7
Average time to close issues: about 6 hours
Average time to close pull requests: 21 days
Issue authors: 1
Pull request authors: 1
Average comments per issue: 3.0
Average comments per pull request: 0.43
Merged pull requests: 5
Bot issues: 0
Bot pull requests: 0

View more stats

Top Authors

Issue Authors

thomased (25)
Bisaloo (17)
juandemedel (4)
HenrikBengtsson (3)
aacocucci (2)
bittonp (1)
hneyster (1)
nitschkematthew (1)
celiason (1)

Pull Request Authors

Bisaloo (64)
thomased (9)
HenrikBengtsson (1)
dmurdoch (1)

Top Labels

Issue Labels

enhancement (16) bug (1) Status: blocked (1)

Pull Request Labels

Status: blocked (1)

Packages

Total packages: 1
Total downloads:
- cran 900 last-month

Total dependent packages: 3
Total dependent repositories: 4
Total versions: 28
Total maintainers: 1

cran.r-project.org: pavo

Perceptual Analysis, Visualization and Organization of Spectral Colour Data

Homepage: http://pavo.colrverse.com
Documentation: http://cran.r-project.org/web/packages/pavo/pavo.pdf
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
Latest release: 2.9.0
published over 2 years ago

Versions: 28
Dependent Packages: 3
Dependent Repositories: 4
Downloads: 900 Last month

Rankings

Forks count: 4.6%

Stargazers count: 5.5%

Average: 8.9%

Dependent packages count: 10.9%

Dependent repos count: 14.5%

Maintainers (1)

thomas.white026@gmail.com

Last synced: 7 months ago

Dependencies

DESCRIPTION cran

R >= 3.5.0 depends
cluster * imports
farver * imports
future.apply * imports
geometry >= 0.4.0 imports
lightr >= 1.0 imports
magick * imports
plot3D * imports
progressr * imports
sp * imports
viridisLite * imports
alphashape3d * suggests
digest * suggests
imager * suggests
knitr * suggests
mapproj * suggests
rgl * suggests
rmarkdown * suggests
testthat >= 2.99.0 suggests
vdiffr * suggests

.github/workflows/R-CMD-check.yaml actions

actions/checkout v2 composite
r-lib/actions/check-r-package v2 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/lint-changed-files.yaml actions

actions/checkout v3 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

.github/workflows/pkgdown.yaml actions

JamesIves/github-pages-deploy-action 4.1.4 composite
actions/checkout v2 composite
r-lib/actions/setup-pandoc v2 composite
r-lib/actions/setup-r v2 composite
r-lib/actions/setup-r-dependencies v2 composite

Dockerfile docker

rocker/tidyverse devel build

pavo

Science Score: 49.0%

Keywords

Keywords from Contributors

Repository

Basic Info

Statistics

Topics

Metadata Files

README.md

pavo

An R package for the spectral and spatial analysis of color patterns

Currently maintained by Thomas White and Hugo Gruson.

About

Need more information, or help with the package?

Citing pavo

Install

install.packages("remotes")

Owner

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: pavo

Rankings

Maintainers (1)

Dependencies

`pavo`

An `R` package for the spectral and spatial analysis of color patterns