Data engineering and BI courses are free!
Rdocumentation
powered by
Learn R Programming
⚠️
There's a newer version (10.1) of this package.
Take me there.
phenology (version 4.0.4)
Tools to Manage a Parametric Function that Describes Phenology
Description
Functions to fit and test the phenology of species based on counts. The package includes also several useful more general functions.
Copy Link
Link to current version
Version
Version
10.1
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
Install
install.packages('phenology')
Monthly Downloads
305
Version
4.0.4
License
GPL-2
Maintainer
Marc Girondot
Last Published
February 10th, 2015
Functions in phenology (4.0.4)
Search all functions
ChangeCoordinate
Return a value in a changed coordinate
print.phenology
Print the result information from a result object.
print.phenologymap
Print information on a phenologymap object.
summary.phenologyout
Print the summary information from a ouput object.
phenology-package
Tools to Manage a Parametric Function that Describes Phenology
ScalePreviousPlot
Return the scale of the previous plot
print.phenologyout
Print the information from a ouput object.
result_Gratiot2
Result of the fit of Leatherback nest counts
map.scale2
Add Scale to Existing Unprojected Map
result_Gratiot_Flat
Result of the fit of Leatherback nest counts
add_phenology
Create a new dataset or add a timeserie to a previous dataset.
adapt_parameters
Extract the parameters from a set of parameters to be used with another dataset.
phenology_MHmcmc
Run the Metropolis-Hastings algorithm for data
convert.tz
Convert one Date-Time from one timezone to another
result_Gratiot_mcmc
Result of the mcmc for Leatherback nest counts
extract_result
Extract the set of parameters from a result object.
LBLE_to_BE
Transform a set of parameters from LengthB LengthE to Begin End.
add_SD
Add SD for a fixed parameter.
map_phenology
Generate a likelihood map varying Phi and Delta.
Gratiot
Leatherback nest counts from Gratiot et al. (2006) Figure 1
asc
Return the codes (in UTF-8) of a string
clean.knitr
Delete temporary files created during knitr compile
LBLE_to_L
Transform a set of parameters from LengthB LengthE format to Length
map_Gratiot
Likelihood map of Leatherback nest counts
ind_long_lat
Return or the index in ncdf object from lat/longitude or inverse
growlnotify
Send growl notification for MacOs X system.
as.mcmc.mcmcComposite
Extract mcmc object from the result of phenology_MHmcmc to be used with coda package
local.search
Return path of file searched for in local disk based on its file name
plot_delta
Plot a likelihood lineplot obtained after map_phenology.
result_Gratiot
Result of the fit of Leatherback nest counts
par_init
Calculate initial set of parameters.
phenology
Run a shiny application for basic functions of phenology
read_folder
Reads all files present in a folder and creates a list with the content of these files
plot.mcmcComposite
Plot the result of a MCMC search
shift_sinusoid
Shift sinusoid information.
result_Gratiot1
Result of the fit of Leatherback nest counts
toggle_Min_PMin
Transform a set of parameters from Min, MinB or MinE to PMin, PminB or PminE, or reverse
getTide
Annual tide calendar for one particular location
as.par.mcmcComposite
Extract parameters at maximum likelihood from the result of MHmcmc
insidesearch
Search a string within files of a folder #'
plot.phenology
Plot the phenology from a result.
moon_phase
Moon phase based on a date
BE_to_LBLE
Transform a set of parameters from Begin End to LengthB LengthE.
barplot_errbar
Plot a barplot graph with error bar on y
likelihood_phenology
Estimate the likelihood of timeseries based on a set of parameters.
plot.phenologymap
Plot a likelihood map with Delta and Phi varying.
plot_add
Add a plot to a previous one
chr
Return the characters defined by the codes
summary.mcmcComposite
Summarize the result of a MCMC search
plot_errbar
Plot a xy graph with error bar on x and/or y
MinBMinE_to_Min
Transform a set of parameters from MinB and MinE to Min
logLik.phenology
Return Log Likelihood of a fit generated by fit_phenology
compare_AIC
Compares the AIC of several outputs
summary.phenologymap
Print information on a phenologymap object.
fit_phenology
Fit the phenology parameters to timeseries of counts.
phenology_MHmcmc_p
Generates set of parameters to be used with phenology_MHmcmc()
remove_site
Removes site information from a set of parameters.
summary.phenology
Print the result information from a result object.
compassRose2
Display a compass rose
L_to_LBLE
Transform a set of parameters from Length format to LengthB LengthE
plot_phi
Plot the best likelihood for fixed Phi value.
