phenology: Tools to Manage a Parametric Function that Describes Phenology

> library(phenology)

Loading required package: fields
Loading required package: spam
Loading required package: grid
Spam version 1.3-0 (2015-10-24) is loaded.
Type 'help( Spam)' or 'demo( spam)' for a short introduction 
and overview of this package.
Help for individual functions is also obtained by adding the
suffix '.spam' to the function name, e.g. 'help( chol.spam)'.

Attaching package: 'spam'

The following objects are masked from 'package:base':

    backsolve, forwardsolve

Loading required package: maps

 # ATTENTION: maps v3.0 has an updated 'world' map.        #
 # Many country borders and names have changed since 1990. #
 # Type '?world' or 'news(package="maps")'. See README_v3. #


Loading required package: zoo

Attaching package: 'zoo'

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    as.Date, as.Date.numeric

Loading required package: coda

Attaching package: 'coda'

The following object is masked from 'package:rstan':

    traceplot

Loading required package: HelpersMG
Loading required package: shiny
Welcome in package phenology version 4.2.4

バージョン: 4.2.4

関数名 概略
BE_to_LBLE Transform a set of parameters from Begin End to LengthB LengthE.
Gratiot Leatherback nest counts from Gratiot et al. (2006) Figure 1
LBLE_to_BE Transform a set of parameters from LengthB LengthE to Begin End.
LBLE_to_L Transform a set of parameters from LengthB LengthE format to Length
L_to_LBLE Transform a set of parameters from Length format to LengthB LengthE
MinBMinE_to_Min Transform a set of parameters from MinB and MinE to Min
adapt_parameters Extract the parameters from a set of parameters to be used with another dataset.
add_SD Add SD for a fixed parameter.
add_phenology Create a new dataset or add a timeserie to a previous dataset.
extract_result Extract the set of parameters from a result object.
fitRMU Adjust incomplete timeseries with various constraints.
fitRMU_MHmcmc Run the Metropolis-Hastings algorithm for RMU.data
fitRMU_MHmcmc_p Generates set of parameters to be used with fitRMU_MHmcmc()
fit_phenology Fit the phenology parameters to timeseries of counts.
likelihood_phenology Estimate the likelihood of timeseries based on a set of parameters.
logLik.fitRMU Return Log Likelihood of a fit generated by fitRMU
logLik.phenology Return Log Likelihood of a fit generated by fit_phenology
map_Gratiot Likelihood map of Leatherback nest counts
map_phenology Generate a likelihood map varying Phi and Delta.
par_init Calculate initial set of parameters.
phenology Run a shiny application for basic functions of phenology
phenology-package Tools to Manage a Parametric Function that Describes Phenology
phenology_MHmcmc Run the Metropolis-Hastings algorithm for data
phenology_MHmcmc_p Generates set of parameters to be used with phenology_MHmcmc()
plot.fitRMU Plot the synthesis of RMU fit.
plot.phenology Plot the phenology from a result.
plot.phenologymap Plot a likelihood map with Delta and Phi varying.
plot_delta Plot a likelihood lineplot obtained after map_phenology.
plot_phi Plot the best likelihood for fixed Phi value.
print.phenology Print the result information from a result object.
print.phenologymap Print information on a phenologymap object.
print.phenologyout Print the information from a ouput object.
remove_site Removes site information from a set of parameters.
result_Gratiot Result of the fit of Leatherback nest counts
result_Gratiot1 Result of the fit of Leatherback nest counts
result_Gratiot2 Result of the fit of Leatherback nest counts
result_Gratiot_Flat Result of the fit of Leatherback nest counts
result_Gratiot_mcmc Result of the mcmc for Leatherback nest counts
shift_sinusoid Shift sinusoid information.
summary.phenology Print the result information from a result object.
summary.phenologymap Print information on a phenologymap object.
summary.phenologyout Print the summary information from a ouput object.
toggle_Min_PMin Transform a set of parameters from Min, MinB or MinE to PMin, PminB or PminE, or reverse