Package: gaiah 0.0.5.9000

gaiah: Genetic and Isotopic Assignment Accounting for Habitat Suitability

Tools for using genetic markers, stable isotope data, and habitat suitability data to calculate posterior probabilities of breeding origin of migrating birds.

Authors:Eric C. Anderson [cre, aut]

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gaiah.pdf |gaiah.html✨
gaiah/json (API)
NEWS

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

Peer review:

Bug tracker:https://github.com/eriqande/gaiah/issues

Datasets:

On CRAN:

2.74 score 1 stars 11 scripts 189 downloads 10 exports 22 dependencies

Last updated 2 years agofrom:58ed0fe099. Checks:OK: 3 NOTE: 4. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 03 2024
R-4.5-winNOTENov 03 2024
R-4.5-linuxNOTENov 03 2024
R-4.4-winNOTENov 03 2024
R-4.4-macNOTENov 03 2024
R-4.3-winOKNov 03 2024
R-4.3-macOKNov 03 2024

Exports:%>%comboizecomboize_and_fortifyextract_isopredictionsgenetic_posteriors2rastersget_wrld_simplgreat_circle_rastergroup_birds_by_locationisomap2rasterisotope_posterior_probs

Dependencies:clidplyrfansigenericsgeospheregluelatticelifecyclemagrittrpillarpkgconfigR6rasterRcpprlangspterratibbletidyselectutf8vctrswithr

Readme and manuals

Help Manual

Help pageTopics
Posterior probs of genetic region origin from Leave-one-out cross validation for breeding WIWAsbreeding_wiwa_genetic_posteriors
Isotope values, latitude, longitude and more data from 357 breeding Wilson's warblersbreeding_wiwa_isotopes
combine genetics, isotopes, and habitat raster with exponents as givencomboize
prepare fortified output for multipanel plotcomboize_and_fortify
Output of 'isotope_posterior_probs' for two migrant birds.example_isotope_posteriors
Add the isomap prediction and sd in columns attached to the feather isotope data frameextract_isopredictions
gaiah: Genetic and Isotopic Assignment Accounting for Habitat Suitabilitygaiah
Convert posteriors to particular genetic reporting groups into rastergenetic_posteriors2rasters
RasterStack showing the 6 genetic regions that Wilson's warblers may be assigned togenetic_regions
return the wrld_simpl data set from maptoolsget_wrld_simpl
return a raster of great circle distances (in km)great_circle_raster
Group bird isotope data by locationsgroup_birds_by_location
Predicted isotope values from ISOMAPisomap_job54152_prediction
convert columns of an ISOMAP isoscape to a raster objectisomap2raster
compute posterior probabilities of origin given isotope valuesisotope_posterior_probs
Posterior probs of genetic region of origin for 926 WIWAs sampled during migrationmigrant_wiwa_genetic_posteriors
Isotope values and meta data for 688 migrating Wilson's Warblersmigrant_wiwa_isotopes
a raster of the breeding range of Wilson's warblerwiwa_breed
RasterLayer showing the MaxEnt habitat suitability model unclipped by the known breeding rangewiwa_habitat_unclipped
Simple map of the worldwrld_simpl