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devRate package

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

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Version

Install

install.packages('devRate')

Monthly Downloads

352

Version

0.1.10

License

GPL-2

Issues

Pull Requests

Stars

Forks

Maintainer

Rebaudo Francois

Last Published

May 27th, 2019

Functions in devRate (0.1.10)

briere2_99

Briere et al equation 2 of development rate as a function of temperature.
compDifDays

Compute the inverse of the number of days between dates
devRateFind

Find models for species
devRatePlot

Plot the empirical points and the regression
devRateEqList

The list of all available equations of development rate as a function of temperature.
devRateModel

Compute non-linear regression
beta_95

Beta equation of development rate as a function of temperature.
hilbertLogan_83

Holling type III equation of development rate as a function of temperature.
logan10_76

Logan et al. equation 10 of development rate as a function of temperature.
logan6_76

Logan et al. equation 6 of development rate as a function of temperature.
davidson_44

Davidson equation of development rate as a function of temperature.
devRateIBM

Forecast ectotherm phenology as a function of temperature and development rate models
stinner_74

Stinner et al equation of development rate as a function of temperature.
devRate

devRate: A package to quantify the relationship between development rate and temperature in ectotherms.
devRateMap

Predict development rate from a matrix of temperatures
devRateInfo

Display information about an equation
ratkowsky_82

Ratkowsky equation of development rate as a function of temperature (Shi modification).
lactin2_95

Lactin et al. equation 2 of development rate as a function of temperature.
janisch_32

Janisch equation of development rate as a function of temperature (Analytis modification).
poly4

Fourth-order polynomial equation of development rate as a function of temperature.
compDifDaysDf

Compute the inverse of the number of days between dates from a data frame.
devRateIBMdataBase

Forecast ectotherm phenology as a function of temperature and development rate models available in the package database
taylor_81

Taylor equation of development rate as a function of temperature.
devRatePlotInfo

Plot thermal performance curves from the literature
devRateIBMgen

Number of generations
devRatePrint

Report model output from the NLS fit
regniere_12

Regniere equation of development rate as a function of temperature.
ratkowsky_83

Ratkowsky equation of development rate as a function of temperature (Shi 2016 modification).
devRateIBMPlot

Plot phenology table
harcourtYee_82

Harcourt and Yee equation of development rate as a function of temperature.
exTropicalMoth

Tropical moth development rate at constant temperatures.
perf2_11

Performance-2 equation of development rate as a function of temperature.
lamb_92

Lamb equation of development rate as a function of temperature.
poly2

Second-order polynomial equation of development rate as a function of temperature.
schoolfieldLow_81

Schoolfield et al. equation of development rate as a function of temperature for intermediate to low temperatures only.
kontodimas_04

Kontodimas et al. equation of development rate as a function of temperature.
rootsq_82

Root square equation of development rate as a function of temperature.
lactin1_95

Lactin et al. equation 1 of development rate as a function of temperature.
sharpeDeMichele_77

Sharpe and DeMichele equation of development rate as a function of temperature.
shi_11

Shi equation of development rate as a function of temperature.
schoolfield_81

Schoolfield et al. equation of development rate as a function of temperature.
schoolfieldHigh_81

Schoolfield et al. equation of development rate as a function of temperature for intermediate to high temperatures only.
wangengel_98

Wang and Engel equation of development rate as a function of temperature.
wagner_88

Hagstrum et Milliken equation of development rate as a function of temperature retrieved from Wagner 1984.
wang_82

Wang et al. equation of development rate as a function of temperature.
analytis_77

Analytis equation of development rate as a function of temperature.
beta_16

Beta2 equation of development rate as a function of temperature.
bieri1_83

Bieri equation 1 of development rate as a function of temperature.
briere1_99

Briere et al equation 1 of development rate as a function of temperature.
bayoh_03

Bayoh and Lindsay equation of development rate as a function of temperature.
damos_08

Simplified beta type equation of development rate as a function of temperature.
campbell_74

Campbell et al. equation of development rate as a function of temperature.
damos_11

Inverse second-order polynomial equation of development rate as a function of temperature.