Statistical method | Field method | Count conversion | Relative rate of increase | Checking data | Formatting data | Fitting trend | References
Package: popbayes 1.3
Nicolas Casajus
popbayes: Bayesian Model to Estimate Population Trends from Counts Series
Infers the trends of one or several animal populations over time from series of counts. It does so by accounting for count precision (provided or inferred based on expert knowledge, e.g. guesstimates), smoothing the population rate of increase over time, and accounting for the maximum demographic potential of species. Inference is carried out in a Bayesian framework. This work is part of the FRB-CESAB working group AfroBioDrivers <https://www.fondationbiodiversite.fr/en/the-frb-in-action/programs-and-projects/le-cesab/afrobiodrivers/>.
Authors:
popbayes_1.3.tar.gz
popbayes_1.3.zip(r-4.7)popbayes_1.3.zip(r-4.6)popbayes_1.3.zip(r-4.5)
popbayes_1.3.tgz(r-4.6-any)popbayes_1.3.tgz(r-4.5-any)
popbayes_1.3.tar.gz(r-4.7-any)popbayes_1.3.tar.gz(r-4.6-any)
popbayes_1.3.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
popbayes/json (API)
| # Install 'popbayes' in R: |
| install.packages('popbayes', repos = c('https://frbcesab.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/frbcesab/popbayes/issues
Pkgdown/docs site:https://frbcesab.github.io
Datasets:
- garamba - African mammals survey in the Garamba National Park
- species_info - Species information dataset
animalbayesiancountspopulationprecisiontemporal-trendjagscpp
Last updated from:ab98f6510b. Checks:9 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| linux-devel-x86_64 | OK | 114 | ||
| source / vignettes | OK | 173 | ||
| linux-release-x86_64 | OK | 113 | ||
| macos-release-arm64 | OK | 98 | ||
| macos-oldrel-arm64 | OK | 122 | ||
| windows-devel | OK | 76 | ||
| windows-release | OK | 76 | ||
| windows-oldrel | OK | 72 | ||
| wasm-release | OK | 103 |
Exports:bugs_to_dfdiagnosticfilter_seriesfit_trendformat_datalist_seriesplot_seriesplot_trendread_bugsread_seriesseries_to_dfw_to_rmax
Dependencies:abindbootclicodagluelatticelifecyclemagrittrR2jagsR2WinBUGSrjagsrlangstringistringrvctrs
Get started
Last update: 2023-06-15
Started: 2019-10-30
Get species information
Calculating rmax | Building conversion table | Categorizing species | References
Last update: 2021-10-29
Started: 2021-05-16
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Extract estimated parameters from a list of BUGS outputs | bugs_to_df |
| Check if a BUGS model has converged | diagnostic |
| Extract the count series corresponding to a location and/or a species | filter_series |
| Fit a Bayesian model to estimate population size trend | fit_trend |
| Format count series | format_data |
| African mammals survey in the Garamba National Park | garamba |
| Retrieve the count series names | list_series |
| Plot original vs converted counts | plot_series |
| Plot estimated population trend | plot_trend |
| Import a list of BUGS outputs previously exported | read_bugs |
| Import a list of count series previously exported | read_series |
| Extract original/converted count series data from a list | series_to_df |
| Species information dataset | species_info |
| Compute rmax from adult female body mass | w_to_rmax |
