Learn R Programming

incR: R package for the analysis of avian incubation

This is the development site of incR, an R package to analyse avian incubation temperatures and incubation behaviour. The code and the documentation are updated often - check for latest version here and on CRAN.

incR takes a time-series of incubation temperature, scores incubation and provides a suite of functions to calculate biologically relevant metrics of incubation.

Please, if you use the package and find bugs or think of any improvement, get in contact to implement your recommendations.

Latest news

Version 2.1.1 is available on CRAN. Please, check NEWS document for the latest updates.

Development version available on GitHub 2.1.1.9000 (September 2025).

Citation

Please, if you use incR cite it as:

Capilla-Lasheras, Pablo (2018). incR: a new R package to analyse incubation behaviour. Journal of Avian Biology 49:e01710. https://doi.org/10.1111/jav.01710

Copy Link

Version

Install

install.packages('incR')

Monthly Downloads

176

Version

2.1.1

License

GPL-3

Maintainer

Pablo Capilla-Lasheras

Last Published

September 17th, 2025

Functions in incR (2.1.1)

incR

incR: Analysis of animal incubation
incRact

Calculation of daily first incubation off-bout and last incubation on-bout
incRatt

Calculation of the percentage of daily time spent in nest
incR_envdata

An example data set of environmental temperatures to test the use of link{incRenv}.
incRbouts

Calculation of the number of daily on- and off-bouts
incRenv_old

Matching environmental and nest temperatures - Old version
incRplot

Quick visualisation of incubation temperatures, on-bouts and off-bouts
incRt

Calculation of temperature average and variance for customised time windows
incRenv

Matching environmental and nest temperatures
incRscan_v2

Scoring of incubation based on a fixed temperature threshold
incRscan_v3

Scoring of incubation based on combination of dynamic (as in incRscan) and fixed temperature thresholds (as in incRscan_v2
incRprep

Data preparation for incubation analysis in incR
incRscan

Automated scoring of incubation
incR_procdata

An example of incubation temperature time-series after the use of incRprep and incRenv.
incR_rawdata

An example of incubation temperature time-series