photobiology

0.14.2

Photobiological Calculations

11packages depend

16.4Kdownloads / year

–test coverage

13/13checks pass

Overview

About

Maintained by Pedro J. AphaloFirst published 2016-02-0156 releasesCRAN page ↗GitHub ↗

Definitions of classes, methods, operators and functions for use in photobiology and radiation meteorology and climatology. Calculation of effective (weighted) and not-weighted irradiances/doses, fluence rates, transmittance, reflectance, absorptance, absorbance and diverse ratios and other derived quantities from spectral data. Local maxima and minima: peaks, valleys and spikes. Conversion between energy-and photon-based units. Wavelength interpolation. Colours and vision. This package is part of the 'r4photobiology' suite, Aphalo, P. J. (2015) doi:10.19232/uv4pb.2015.1.14.

Install

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

install.packages("photobiology", 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("aphalo/photobiology")

Development version from aphalo/photobiology. 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-photobiology

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-photobiology

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-photobiology

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

Health

CRAN checks

13OK

Slowest check: 6.6 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
OK2026-03-19
14 OK · 0 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE
NOTE2026-03-10
13 OK · 1 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE

Documentation

READMEYes · 554 wordsVignettesYes · dynamicpkgdown siteNoNEWSYes · 67% structuredCode of conductNoContributing guideNo

Examples that run: 100%
Documented parameters: 90%
Return-value docs: 95%
References docs: 5%

Downloads

16.4K

CRAN downloads in the past year

Rank #3,822 · ~45/day · ~1.4K/mo

Releases R versions

Daily download trend is not available in this view yet.

58730 days

2.7K90 days

16.4K1 year

Compare downloads with other packages →

Also on234 r2u21 autocran12.1K conda_forge

Repository

GitHub ↗ aphalo/photobiology

6Stars

2Forks

14Open issues

0Open PRs

0Releases

1,366Commits

1Contributors

lightphotobiologyquantificationradiationspectrasun-positionr4photobiology-suite

1,366 commits · Last activity 2026-06-27 · 0% stars, 30d

Stars over time

2025-06-16 · 62026-07-07 · 6

Repository practices

Upstream repositoryBeta

6 development-tooling and community-health practices detected across 5 families in the upstream repository

Checks run against github.com/aphalo/photobiology on 2026-07-19.

Continuous integration (1)

GitHub Actions

Reproducibility and dev environment (1)

data-raw/

Docs source (1)

README.Rmd

Lint, format, editor (2)

lintrRStudio project

Show all practices

Governance and community (1)

Issue templates

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

Dependencies

Declared dependencies

18 external dependencies (excludes base and recommended)

Depends (2)

R >= 4.1.0SunCalcMeeus

Imports (13)

statsgrDevicespolynom tibble stringr lubridate caTools plyr dplyr tidyr splus2R zoo rlang

LinkingTo (0)

none

Suggests (6)

knitr rmarkdown testthat roxygen2 lutz covr

Enhances (0)

none

Dependency license breakdown →

Reverse dependencies

11direct

1indirect

ggspectra photobiologyFilters photobiologyInOut photobiologyLEDs photobiologyLamps photobiologyPlants photobiologySensors photobiologySun photobiologyWavebands afthd vachette

Code & Tests

Code Composition

R 42,820 (58%)Rd 27,605 (37%)Vignettes 4,017 (5%)

Code characteristics

Object systems

S3728

Cyclomatic complexity: 1.0 median / 124 max

Test coverage

Line coverage

–

Expression

–

Tests / Examples

–

Functions

1183 416 exported

Complexity

3.7 avg / 124 max

Call network

1183 nodes / 2357 edges

Call graph

Open call graph →

Loading call graph…

Lowest coverage

Per-function coverage is not measured for this package yet.

Datasets

Bundled datasets · 40

Name	Class	Rows × Cols	Also ships in
D2.UV586	polynomial	–	–
D2.UV653	polynomial	–	–
D2.UV654	polynomial	–	–
Ler_leaf.spct	object_spct/generic_spct/tbl_df/tbl/data.frame	2,401 × 3	–
Ler_leaf_rflt.spct	reflector_spct/generic_spct/tbl_df/tbl/data.frame	1,750 × 2	–
Ler_leaf_trns.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	1,753 × 2	–
Ler_leaf_trns_i.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	2,401 × 3	–
beesxyzCMF.spct	chroma_spct/generic_spct/tbl_df/tbl/data.frame	401 × 4	–
black_body.spct	object_spct/generic_spct/tbl_df/tbl/data.frame	4 × 3	–
ccd.spct	response_spct/generic_spct/tbl_df/tbl/data.frame	186 × 2	–
ciev10.spct	response_spct/generic_spct/tbl_df/tbl/data.frame	441 × 2	–
ciev2.spct	response_spct/generic_spct/tbl_df/tbl/data.frame	441 × 2	–
ciexyzCC10.spct	chroma_spct/generic_spct/tbl_df/tbl/data.frame	441 × 4	–
ciexyzCC2.spct	chroma_spct/generic_spct/tbl_df/tbl/data.frame	441 × 4	–
ciexyzCMF10.spct	chroma_spct/generic_spct/tbl_df/tbl/data.frame	441 × 4	–
ciexyzCMF2.spct	chroma_spct/generic_spct/tbl_df/tbl/data.frame	441 × 4	–
clear.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	4 × 2	–
clear_body.spct	object_spct/generic_spct/tbl_df/tbl/data.frame	4 × 3	–
cone_fundamentals10.spct	chroma_spct/generic_spct/tbl_df/tbl/data.frame	4 × 4	–
green_leaf.spct	reflector_spct/generic_spct/tbl_df/tbl/data.frame	226 × 2	–
opaque.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	4 × 2	–
phenylalanine.spct	solute_spct/generic_spct/tbl_df/tbl/data.frame	1,993 × 2	–
photodiode.spct	response_spct/generic_spct/tbl_df/tbl/data.frame	94 × 2	–
polyester.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	561 × 2	–
r4p_pkgs	vector	–	–
sun.daily.data	tbl_df/tbl/data.frame	511 × 3	–
sun.daily.spct	source_spct/generic_spct/tbl_df/tbl/data.frame	522 × 3	–
sun.data	tbl_df/tbl/data.frame	508 × 3	–
sun.spct	source_spct/generic_spct/tbl_df/tbl/data.frame	522 × 3	–
sun_daily.data	tbl_df/tbl/data.frame	511 × 3	–
sun_daily.spct	source_spct/generic_spct/tbl_df/tbl/data.frame	522 × 3	–
sun_evening.spct	source_spct/generic_spct/tbl_df/tbl/data.frame	7,965 × 3	–
two_filters.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	1,172 × 3	–
two_sensors.spct	response_spct/generic_spct/tbl_df/tbl/data.frame	280 × 4	–
water.spct	solute_spct/generic_spct/tbl_df/tbl/data.frame	251 × 2	–
white_body.spct	object_spct/generic_spct/tbl_df/tbl/data.frame	4 × 3	–
white_led.cps_spct	cps_spct/generic_spct/tbl_df/tbl/data.frame	2,068 × 2	–
white_led.raw_spct	raw_spct/generic_spct/tbl_df/tbl/data.frame	2,068 × 4	–
white_led.source_spct	source_spct/generic_spct/tbl_df/tbl/data.frame	1,421 × 2	–
yellow_gel.spct	filter_spct/generic_spct/tbl_df/tbl/data.frame	611 × 2	–

People & History

People (4)

Maintainer (1)

Pedro J. Aphalo

Author, Maintainer

Authors (1)

Pedro J. Aphalo

Author, Maintainer

Contributors (3)

Glenn Davis

Contributor · added in 0.9.20

Agnese Fazio

Contributor · added in 0.10.0

Titta K. Kotilainen

Contributor · added in 0.9.9

Package Timeline

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

R
R 4.6.0 released · 2026-04-24
0.14.2Latest
2026-03-15 · current release · diff ↗
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R 4.5.0 released · 2025-04-11
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R 4.4.0 released · 2024-04-24
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2024-02-26 · diff ↗
0.11.0
2023-10-21 · diff ↗
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2023-05-27 · diff ↗

Show 52 earlier events

R
R 4.3.0 released · 2023-04-21
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R 4.2.0 released · 2022-04-22
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R 4.1.0 released · 2021-05-18
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R 4.0.0 released · 2020-04-24
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R 3.6.0 released · 2019-04-26
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R 3.5.0 released · 2018-04-23
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R 3.4.0 released · 2017-04-21
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R 3.3.0 released · 2016-05-03
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0.9.4
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R
R 3.2.0 released · 2015-04-16

Package metadata

First published: 2016-02-01
Total releases: 56 / 10 yrs
License: GPL (>= 2) OSI
Minimum R: ≥ 4.1.0
Bundled data: 343 KB / 24 files
Download size: 1.1 MB
Installed size: not tracked yet
With dependencies: not tracked yet

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