embryogrowth: Tools to Analyze the Thermal Reaction Norm of Embryo Growth

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

AuthorMarc Girondot <marc.girondot@u-psud.fr>
Date of publication2016-10-02 10:12:28
MaintainerMarc Girondot <marc.girondot@u-psud.fr>
LicenseGPL-2
Version6.4

View on CRAN

Man pages

ChangeSSM: Generate set of parameters for Schoolfield-Sharpe-Magnuson...

DatabaseNestingArea: Database of RMU for marine turtles

DatabaseTSD: Database of TSD information for reptiles

dydt.exponential: Return the derivative of the exponential function

dydt.Gompertz: Return the derivative of the Gompertz function

dydt.linear: Return the derivative of the linear function

embryogrowth-package: The package embryogrowth

FormatNests: Create a dataset of class Nests to be used with searchR

GenerateAnchor: Generate a set of anchored parameters

GenerateConstInc: Generate a data.frame with constant incubation temperature...

GenerateTest: Generate a data.frame that can be used as test value for...

GRTRN_MHmcmc: Metropolis-Hastings algorithm for Embryo Growth Rate Thermal...

hist.Nests: Show the histogram of temperatures with set of nests

hist.NestsResult: Show the histogram of temperatures with set of nests

info.nests: Calculte statistics about nests

likelihoodR: Estimate the likelihood of a set of parameters for nest...

logLik.NestsResult: Return Log Likelihood of a fit generated by searchR

logLik.tsd: Return Log Likelihood of a fit generated by tsd

MovingIncubation: Simulate incubation of a nest with the beginning of...

nest: Timeseries of temperatures for nests

plot.NestsResult: Plot the embryo growth

plotR: Show the fitted growth rate dependent on temperature

plotR_hist: Shows the histogram of temperatures with set of nests and the...

plot_transition: Show fonction used for transition

plot.tsd: Plot results of tsd() that best describe...

predict.tsd: Estimate sex ratio according to constant incubation...

result_mcmc_4p: Result of the mcmc using the nest database

result_mcmc_4p_weight: Result of the mcmc using the nest database

result_mcmc_6p: Result of the mcmc using the nest database

result_mcmc_newp: Result of the mcmc using the nest database with anchored...

resultNest_4p: Fit using the nest database

resultNest_4p_transition: Result of the fit using the nest database using transition

resultNest_4p_weight: Fit using the nest database with weight

resultNest_6p: Fit using the nest database

resultNest_newp: Fit using the nest database with anchored parameters

searchR: Fit the parameters that best represent nest incubation data.

SEforR: Estimate the standard error for a set of parameters

stages: Database of of embryonic development and thermosensitive...

STRN: Estimate the parameters that best describe the sexualisation...

STRN_MHmcmc: Metropolis-Hastings algorithm for Sexualisation Thermal...

summary.Nests: Summarize the information from a Nests object.

switch.transition: Add a transition parameter on a set of parameters or remove...

tempConst: Timeseries of constant temperatures for nests

TestParallel: Estimate the likelihood of a set of parameters for nest...

TRN_MHmcmc_p: Generates set of parameters to be used with GRTRN_MHmcmc() or...

tsd: Estimate the parameters that best describe...

tsd_MHmcmc: Metropolis-Hastings algorithm for Sex ratio

tsd_MHmcmc_p: Generates set of parameters to be used with tsd_MHmcmc()

TSP.list: Database of thermosensitive period of development for sex...

web.tsd: Run a shiny application for basic functions of tsd function

weightmaxentropy: Search for the weights of the nests which maximize the...

Files in this package

embryogrowth
embryogrowth/inst
embryogrowth/inst/shiny
embryogrowth/inst/shiny/ui.R
embryogrowth/inst/shiny/server.R
embryogrowth/inst/shiny/www
embryogrowth/inst/shiny/www/PDF.png
embryogrowth/NAMESPACE
embryogrowth/NEWS
embryogrowth/data
embryogrowth/data/resultNest_6p.rda
embryogrowth/data/nest.rda
embryogrowth/data/resultNest_4p_weight.rda
embryogrowth/data/stages.rda
embryogrowth/data/resultNest_4p_transition.rda
embryogrowth/data/resultNest_newp.rda
embryogrowth/data/result_mcmc_4p_weight.rda
embryogrowth/data/result_mcmc_6p.rda
embryogrowth/data/DatabaseNestingArea.rda
embryogrowth/data/result_mcmc_newp.rda
embryogrowth/data/resultNest_4p.rda
embryogrowth/data/DatabaseTSD.rda
embryogrowth/data/result_mcmc_4p.rda
embryogrowth/data/tempConst.rda
embryogrowth/data/TSP.list.rda
embryogrowth/R
embryogrowth/R/result_mcmc_4p.R embryogrowth/R/resultNest_4p_transition.R embryogrowth/R/fonctiontsdMCMC.R embryogrowth/R/TestParallel.R embryogrowth/R/DatabaseTSD.R embryogrowth/R/Linear.R embryogrowth/R/GenerateTest.R embryogrowth/R/searchR.R embryogrowth/R/fitSSM.R embryogrowth/R/SEforR.R embryogrowth/R/predict.tsd.R embryogrowth/R/plot.NestsResult.R embryogrowth/R/web.tsd.R embryogrowth/R/tempConst.R embryogrowth/R/resultNest_4p_weight.R embryogrowth/R/result_mcmc_6p.R embryogrowth/R/plot_transition.R embryogrowth/R/embryogrowth-package.R embryogrowth/R/FormatNests.R embryogrowth/R/Gompertz.R embryogrowth/R/tsd.R embryogrowth/R/summary.Nests.R embryogrowth/R/STRN_MHmcmc.R embryogrowth/R/nest.R embryogrowth/R/result_mcmc_newp.R embryogrowth/R/tsd_MHmcmc.R embryogrowth/R/logLik.tsd.R embryogrowth/R/DatabaseNestingArea.R embryogrowth/R/gradientRichardson.R embryogrowth/R/modelTSD.R embryogrowth/R/weightmaxentropy.R embryogrowth/R/logLik.NestsResult.R embryogrowth/R/SSM.R embryogrowth/R/plotR.R embryogrowth/R/resultNest_newp.R embryogrowth/R/hessianRichardson.R embryogrowth/R/TRN_MHmcmc_p.R embryogrowth/R/stages.R embryogrowth/R/likelihoodR.R embryogrowth/R/weightmaxentropy_fit.R embryogrowth/R/hist.NestsResult.R embryogrowth/R/GenerateConstInc.R embryogrowth/R/hist.Nests.R embryogrowth/R/resultNest_4p.R embryogrowth/R/plot.tsd.R embryogrowth/R/STRN.R embryogrowth/R/MovingIncubation.R embryogrowth/R/TSP.list.R embryogrowth/R/result_mcmc_4p_weight.R embryogrowth/R/switch.transition.R embryogrowth/R/tsd_MHmcmc_p.R embryogrowth/R/fonctionSTRNMCMC.R embryogrowth/R/ChangeSSM.R embryogrowth/R/resultNest_6p.R embryogrowth/R/plotR_hist.R embryogrowth/R/tsd_fit.R embryogrowth/R/GenerateAnchor.R embryogrowth/R/GRTRN_MHmcmc.R embryogrowth/R/STRN_fit.R embryogrowth/R/info.nests.R embryogrowth/R/Exponential.R
embryogrowth/MD5
embryogrowth/DESCRIPTION
embryogrowth/man
embryogrowth/man/logLik.tsd.Rd embryogrowth/man/weightmaxentropy.Rd embryogrowth/man/tsd.Rd embryogrowth/man/resultNest_4p_weight.Rd embryogrowth/man/GenerateAnchor.Rd embryogrowth/man/result_mcmc_newp.Rd embryogrowth/man/hist.Nests.Rd embryogrowth/man/GenerateConstInc.Rd embryogrowth/man/embryogrowth-package.Rd embryogrowth/man/ChangeSSM.Rd embryogrowth/man/result_mcmc_4p_weight.Rd embryogrowth/man/plotR_hist.Rd embryogrowth/man/resultNest_6p.Rd embryogrowth/man/tsd_MHmcmc.Rd embryogrowth/man/tsd_MHmcmc_p.Rd embryogrowth/man/hist.NestsResult.Rd embryogrowth/man/logLik.NestsResult.Rd embryogrowth/man/likelihoodR.Rd embryogrowth/man/predict.tsd.Rd embryogrowth/man/info.nests.Rd embryogrowth/man/nest.Rd embryogrowth/man/dydt.exponential.Rd embryogrowth/man/switch.transition.Rd embryogrowth/man/summary.Nests.Rd embryogrowth/man/resultNest_newp.Rd embryogrowth/man/dydt.Gompertz.Rd embryogrowth/man/TestParallel.Rd embryogrowth/man/plot.tsd.Rd embryogrowth/man/MovingIncubation.Rd embryogrowth/man/resultNest_4p_transition.Rd embryogrowth/man/resultNest_4p.Rd embryogrowth/man/result_mcmc_6p.Rd embryogrowth/man/plot.NestsResult.Rd embryogrowth/man/DatabaseNestingArea.Rd embryogrowth/man/GenerateTest.Rd embryogrowth/man/STRN.Rd embryogrowth/man/web.tsd.Rd embryogrowth/man/tempConst.Rd embryogrowth/man/plotR.Rd embryogrowth/man/result_mcmc_4p.Rd embryogrowth/man/TRN_MHmcmc_p.Rd embryogrowth/man/dydt.linear.Rd embryogrowth/man/SEforR.Rd embryogrowth/man/TSP.list.Rd embryogrowth/man/plot_transition.Rd embryogrowth/man/searchR.Rd embryogrowth/man/FormatNests.Rd embryogrowth/man/GRTRN_MHmcmc.Rd embryogrowth/man/STRN_MHmcmc.Rd embryogrowth/man/DatabaseTSD.Rd embryogrowth/man/stages.Rd

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