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A guide to transform species distributions into a presence absence matrix based on a user-defined grid in R28 days ago
IUCN shapefiles | Quick start | Using different projections | Other features | Occurrence data (e.g. GBIF) | Using your own grid
letsR 6.1Bruno Vilela A-guide-to-transform-species-distributions-into-a-presence-absence-matrix-based.Rmd
Adding variables to a PresenceAbsence object28 days ago
Adding variables in raster format | Adding variables in polygon format
letsR 6.1Bruno Vilela Adding-variables-to-a-presenceabsence-object.Rmd
Cropping and subsetting your presence absence matrix28 days ago
letsR 6.1Bruno Vilela cropping-and-subsetting-your-presence-absence-matrix.Rmd
Cross-mapping biodiversity metrics across spaces28 days ago
Overview | Data and environmental PAM (example with Phyllomedusa) | Environmental descriptors per environmental cell | Attribute-space PAM for Phyllomedusa species | Cross-mapping an environmental metric into geographic and attribute spaces | A. Into geographic space | B. Into attribute space | Cross-mapping attribute metrics back to geography
letsR 6.1Bruno VilelaCross-mapping-biodiversity-metrics-Phyllomedusa.Rmd
Mapping species richness in attribute space28 days ago
Overview | Simulating trait data and building the attribute space PAM | Visualizing richness in attribute space | Computing attribute-space descriptors | Summarizing descriptors by species | Linking attribute space to geographic space | References
letsR 6.1Bruno VilelaMapping-species-richness-in-attribute-space.Rmd
Mapping species richness in environmental space28 days ago
Loading data | Creating a PAM in environmental space | Visualizing environmental richness | Highlighting a single species | Mapping traits in environmental space | Describing environmental–geographical structure | Summarize descriptors per environmental cell | Plot the descriptors | Diagnosing centrality vs. richness (optional) | References
letsR 6.1Bruno VilelaMapping-species-richness-in-environmental-space.Rmd
Mapping species traits: community level analysis28 days ago
Community level analysis
letsR 6.1Bruno Vilela mapping-species-traits.Rmd
How to save and load a PresenceAbsence object28 days ago
letsR 6.1Bruno Vilela save-load-presenceabsence.Rmd
Macroecological analysis at the species level28 days ago
Example 1: Species level test of Rapoport's rule on Phyllomedusa frogs. | Example 2: Extinction risk correlation with temperature
letsR 6.1Bruno Vilela species-level-macroecological-analysis.Rmd