Package: PVAClone 0.1-7

Peter Solymos

PVAClone: Population Viability Analysis with Data Cloning

Likelihood based population viability analysis in the presence of observation error and missing data. The package can be used to fit, compare, predict, and forecast various growth model types using data cloning.

Authors:Khurram Nadeem, Peter Solymos

PVAClone_0.1-7.tar.gz
PVAClone_0.1-7.tar.gz(r-4.5-noble)PVAClone_0.1-7.tar.gz(r-4.4-noble)
PVAClone_0.1-7.tgz(r-4.4-emscripten)PVAClone_0.1-7.tgz(r-4.3-emscripten)
PVAClone.pdf |PVAClone.html
PVAClone/json (API)

# Install 'PVAClone' in R:
install.packages('PVAClone', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

Bug tracker:https://github.com/psolymos/pvaclone/issues

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
  • c++– GNU Standard C++ Library v3
Datasets:
  • paurelia - Paramecium abundance time series
  • redstart - Abundance time series of American Redstart
  • songsparrow - Abundance time series of Song Sparrow

1.36 score 23 scripts 214 downloads 17 exports 58 dependencies

Last updated 11 months agofrom:62aaddf1c7. Checks:OK: 1 NOTE: 1. Indexed: no.

TargetResultDate
Doc / VignettesOKOct 31 2024
R-4.5-linuxNOTEOct 31 2024

Exports:bevertonholtcoefconfintdiagn_scalefancyPVAmodelgenerateLatentgompertzmodel.selectprint.pvaModelSelectpvapva.llrrickersummarythetalogisticthetalogistic_Dts_indexvcov

Dependencies:abindbackportsBHbootcallrcheckmateclicodacolorspacedclonedcmledescdistributionalfansifarvergenericsggplot2gluegridExtragtableinlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixmatrixStatsmgcvmunsellnlmenumDerivpillarpkgbuildpkgconfigposteriorprocessxpsQuickJSRR2OpenBUGSR6RColorBrewerRcppRcppEigenRcppParallelrjagsrlangrstanscalesStanHeaderstensorAtibbleutf8vctrsviridisLitewithr

Readme and manuals

Help Manual

Help pageTopics
Population Viability Analysis with Data CloningPVAClone-package PVA Pva PVAClone pvaclone
Print fancy model names in summariesfancyPVAmodel
Generate latent variablegenerateLatent
Growth modelsbevertonholt gompertz growthmodels ricker thetalogistic thetalogistic_D
Internal functionsinternal-functions Internals internals PVAClone-internals ts_index
Model selection for 'pva' objectsmodel.select print.pvaModelSelect pva.llr
Paramecium abundance time seriespaurelia
Population Viability Analysisdiagn_scale pva
Class '"pva"'pva-class
Methods for 'pva' objectscoef,pva-method confint,pva-method summary,pva-method vcov,pva-method
Class '"pvamodel"'pvamodel-class
Abundance time series of American Redstartredstart
Abundance time series of Song Sparrowsongsparrow