RDocumentation
Moon
Learn R
Search all packages and functions
⚠️
There's a newer version (9.1) of this package.
Take me there.
phenology (version 4.2.4)
Tools to Manage a Parametric Function that Describes Phenology
Description
Functions used to fit and test the phenology of species based on counts.
Copy Link
Copy
Link to current version
Version
Version
9.1
9.0
7.9
7.8
7.6
7.3
7.2
7.1
7.0
6.0.3
6.0
5.3
5.2
5.1
4.2.4
4.1
4.0.4
4.0
3.72
3.69
3.63
3.62
3.58
3.57
3.55
3.54
3.51
3.50
3.49
3.47
3.44
3.43
3.41
3.40
3.31
3.29
3.28
3.25
Down Chevron
Install
install.packages('phenology')
Monthly Downloads
586
Version
4.2.4
License
GPL-2
Maintainer
Marc Girondot
Last Published
June 30th, 2015
Functions in phenology (4.2.4)
Search functions
plot.phenology
Plot the phenology from a result.
MinBMinE_to_Min
Transform a set of parameters from MinB and MinE to Min
print.phenologymap
Print information on a phenologymap object.
add_SD
Add SD for a fixed parameter.
shift_sinusoid
Shift sinusoid information.
phenology
Run a shiny application for basic functions of phenology
plot.fitRMU
Plot the synthesis of RMU fit.
summary.phenology
Print the result information from a result object.
phenology_MHmcmc
Run the Metropolis-Hastings algorithm for data
L_to_LBLE
Transform a set of parameters from Length format to LengthB LengthE
fitRMU
Adjust incomplete timeseries with various constraints.
fitRMU_MHmcmc
Run the Metropolis-Hastings algorithm for RMU.data
phenology_MHmcmc_p
Generates set of parameters to be used with phenology_MHmcmc()
toggle_Min_PMin
Transform a set of parameters from Min, MinB or MinE to PMin, PminB or PminE, or reverse
logLik.fitRMU
Return Log Likelihood of a fit generated by fitRMU
plot_phi
Plot the best likelihood for fixed Phi value.
add_phenology
Create a new dataset or add a timeserie to a previous dataset.
result_Gratiot1
Result of the fit of Leatherback nest counts
extract_result
Extract the set of parameters from a result object.
par_init
Calculate initial set of parameters.
fit_phenology
Fit the phenology parameters to timeseries of counts.
remove_site
Removes site information from a set of parameters.
logLik.phenology
Return Log Likelihood of a fit generated by fit_phenology
plot_delta
Plot a likelihood lineplot obtained after map_phenology.
LBLE_to_L
Transform a set of parameters from LengthB LengthE format to Length
LBLE_to_BE
Transform a set of parameters from LengthB LengthE to Begin End.
phenology-package
Tools to Manage a Parametric Function that Describes Phenology
plot.phenologymap
Plot a likelihood map with Delta and Phi varying.
print.phenology
Print the result information from a result object.
summary.phenologyout
Print the summary information from a ouput object.
result_Gratiot_mcmc
Result of the mcmc for Leatherback nest counts
result_Gratiot_Flat
Result of the fit of Leatherback nest counts
Gratiot
Leatherback nest counts from Gratiot et al. (2006) Figure 1
likelihood_phenology
Estimate the likelihood of timeseries based on a set of parameters.
print.phenologyout
Print the information from a ouput object.
summary.phenologymap
Print information on a phenologymap object.
BE_to_LBLE
Transform a set of parameters from Begin End to LengthB LengthE.
adapt_parameters
Extract the parameters from a set of parameters to be used with another dataset.
map_Gratiot
Likelihood map of Leatherback nest counts
map_phenology
Generate a likelihood map varying Phi and Delta.
fitRMU_MHmcmc_p
Generates set of parameters to be used with fitRMU_MHmcmc()
result_Gratiot
Result of the fit of Leatherback nest counts
result_Gratiot2
Result of the fit of Leatherback nest counts