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embryogrowth (version 6.2)

Tools to Analyze the Thermal Reaction Norm of Embryo Growth

Description

Tools to analyze the embryo growth and the sexualisation thermal reaction norms.

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Version

Install

install.packages('embryogrowth')

Monthly Downloads

355

Version

6.2

License

GPL-2

Maintainer

Marc Girondot

Last Published

January 8th, 2016

Functions in embryogrowth (6.2)

tsd_MHmcmc

Metropolis-Hastings algorithm for Sex ratio

searchR

Fit the parameters that best represent nest incubation data.

tsd_MHmcmc_p

Generates set of parameters to be used with tsd_MHmcmc()

tsd

Estimate the parameters that best describe temperature-dependent sex determination

STRN

Estimate the parameters that best describe the sexualisation thermal reaction norm within the TSP

GenerateTest

Generate a data.frame that can be used as test value for searchR()

GenerateConstInc

Generate a data.frame with constant incubation temperature and incubation duration

plot.tsd

Plot results of tsd() that best describe temperature-dependent sex determination

likelihoodR

Estimate the likelihood of a set of parameters for nest incubation data

STSRE_TSD

Database of TSD information for marine turtles

MovingIncubation

Simulate incubation of a nest with the beginning of incubation varying

STRN_MHmcmc

Metropolis-Hastings algorithm for Sexualisation Thermal Reaction Norm

hist.NestsResult

Show the histogram of temperatures with set of nests

nest

Timeseries of temperatures for nests

TestParallel

Estimate the likelihood of a set of parameters for nest incubation data with or without parallel computing option

result_mcmc_6p

Result of the mcmc using the nest database

info.nests

Calculte statistics about nests

weightmaxentropy

Search for the weights of the nests which maximize the entropy of nest temperatures distribution

plotR

Show the fitted growth rate dependent on temperature

resultNest_4p_transition

Result of the fit using the nest database using transition

embryogrowth-package

The package embryogrowth

GRTRN_MHmcmc

Metropolis-Hastings algorithm for Embryo Growth Rate Thermal Reaction Norm

stages

Database of of embryonic development and thermosensitive period of development for sex determination

result_mcmc_4p_weight

Result of the mcmc using the nest database

dydt.Gompertz

Return the derivative of the Gompertz function

result_mcmc_4p

Result of the mcmc using the nest database

plot.NestsResult

Plot the embryo growth

resultNest_6p

Fit using the nest database

resultNest_4p_weight

Fit using the nest database with weight

plot_transition

Show fonction used for transition

resultNest_newp

Fit using the nest database with anchored parameters

plotR_hist

Shows the histogram of temperatures with set of nests and the R function superimpose

switch.transition

Add a transition parameter on a set of parameters or remove it

predict.tsd

Estimate sex ratio according to constant incubation temperature

logLik.tsd

Return Log Likelihood of a fit generated by tsd

resultNest_4p

Fit using the nest database

result_mcmc_newp

Result of the mcmc using the nest database with anchored parameters

dydt.linear

Return the derivative of the linear function

dydt.exponential

Return the derivative of the exponential function

hist.Nests

Show the histogram of temperatures with set of nests

TRN_MHmcmc_p

Generates set of parameters to be used with GRTRN_MHmcmc() or STRN_MHmcmc()

logLik.NestsResult

Return Log Likelihood of a fit generated by searchR

ChangeSSM

Generate set of parameters for Schoolfield-Sharpe-Magnuson model

GenerateAnchor

Generate a set of anchored parameters

TSP.list

Database of thermosensitive period of development for sex determination

FormatNests

Create a dataset of class Nests to be used with searchR

summary.Nests

Summarize the information from a Nests object.

tempConst

Timeseries of constant temperatures for nests

STSRE_NestingArea

Database of RMU for marine turtles