Quantify the Relationship Between Development Rate and Temperature in Ectotherms

A set of functions to quantify the relationship between development rate and temperature. The package comprises a set of models and estimated parameters borrowed from a literature review in ectotherms (mostly arthropods).


Purpose of the package

The devRate package allows quantifying the relationship between development rate and temperature in ectotherm organisms.

How to use the package

You can use the package:

  • to get development rate curves as a function of temperature for a specific organism (hundred of examples from the literature are included in the package);
  • to know which equations exists and which are most used in the literature; and
  • to relate development rate with temperature from your empirical data, using the equations from the package database.

Installation instructions

install.packages("devRate")

Overview

The devRate package provides three categories of functions:

  • to find development rate information about a specific organism (Order, Family, Genus, species)
  • to relate development rate and temperature; and
  • to plot your empirical datasets and the associated fitted model, and/or to plot development curves from the literature.

Author's affiliation

UMR EGCE, Univ. ParisSud, CNRS, IRD, Univ. ParisSaclay, Gif-sur-Yvette, France

To cite this package please use citation("devRate") and/or Rebaudo F, Struelens Q, Dangles O. Modelling temperature-dependent development rate and phenology in arthropods: The devRate package for r. Methods Ecol Evol. 2017;00:1-7. https://doi.org/10.1111/2041-210X.12935

News

devRate 0.1.6

  • fix bug in devRatePlotInfo for eq. with NA parameter values
  • fix bug in devRatePlotInfo for eq. briere2_99
  • README and devRate package info updated

devRate 0.1.5

  • main vignette improved
  • new sec01 vignette for model evaluation
  • CITATION file
  • BDD update: 37 models ; 2249 entries ; 799 species

devRate 0.1.4

  • fixed typos and misspellings in the documentation
  • vignette improved and output is generated automatically
  • devRateFind function returns number of parameters and enforce single value

devRate 0.1.3

  • typos and grammatical errors in manual fixed
  • example from the vignette included in the package
  • vignette with more information and interpretation
  • devRateFind function now returns a data.frame
  • new function to model phenology from the package database
  • BDD modif: refs with new column entries
  • BDD update: 35 models and 619 entries ; 138 species

devRate 0.1.2.

  • equations in latex in PDF manual using \eqn{latex}{ascii}
  • fixed some typos in manual
  • linear models with auto-starting values

devRate 0.1.1.

  • vignette improved
  • help page for function devRateMap improved
  • new devRatePrint function (custom output for nls object)
  • bug in phenological model corrected
  • Sharpe and DeMichele equation now in Celsius: transformed into Kelvins within the equation (cf. Sharpe and DeMichele 1977)
  • Structural equations of each regression model in the package manual
  • testing units using testthat package
  • BDD update: 35 models ; 543 entries ; 131 species

devRate 0.1.0.

  • Initial submission

Reference manual

It appears you don't have a PDF plugin for this browser. You can click here to download the reference manual.

install.packages("devRate")

0.1.6 by Francois Rebaudo, 3 months ago


https://github.com/frareb/devRate/


Report a bug at https://github.com/frareb/devRate/issues


Browse source code at https://github.com/cran/devRate


Authors: Francois Rebaudo [aut, cre], Quentin Struelens [aut]


Documentation:   PDF Manual  


GPL-2 license


Suggests knitr, rmarkdown, testthat


See at CRAN