spocc - Interface to Species Occurrence Data Sources

A programmatic interface to many species occurrence data sources, including Global Biodiversity Information Facility ('GBIF'), 'iNaturalist', 'eBird', Integrated Digitized 'Biocollections' ('iDigBio'), 'VertNet', Ocean 'Biogeographic' Information System ('OBIS'), and Atlas of Living Australia ('ALA'). Includes functionality for retrieving species occurrence data, and combining those data.

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specimensapiweb-servicesoccurrencesspeciestaxonomygbifinatvertnetebirdidigbioobisalaantwebbisondataecoengineinaturalistoccurrencespecies-occurrencespocc

10.57 score 125 stars 6 dependents 548 scripts 7.2k downloads

voluModel - Modeling Species Distributions in Three Dimensions

Facilitates modeling species' ecological niches and geographic distributions based on occurrences and environments that have a vertical as well as horizontal component, and projecting models into three-dimensional geographic space. Working in three dimensions is useful in an aquatic context when the organisms one wishes to model can be found across a wide range of depths in the water column. The package also contains functions to automatically generate marine training model training regions using machine learning, and interpolate and smooth patchily sampled environmental rasters using thin plate splines. Davis Rabosky AR, Cox CL, Rabosky DL, Title PO, Holmes IA, Feldman A, McGuire JA (2016) <doi:10.1038/ncomms11484>. Nychka D, Furrer R, Paige J, Sain S (2021) <doi:10.5065/D6W957CT>. Pateiro-Lopez B, Rodriguez-Casal A (2022) <https://CRAN.R-project.org/package=alphahull>.

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6.79 score 11 stars 37 scripts 279 downloads

occCite - Querying and Managing Large Biodiversity Occurrence Datasets

Facilitates the gathering of biodiversity occurrence data from disparate sources. Metadata is managed throughout the process to facilitate reporting and enhanced ability to repeat analyses.

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biodiversity-databiodiversity-informaticsbiodiversity-standardscitationsmuseum-collection-specimensmuseum-collectionsmuseum-metadata

6.49 score 24 stars 54 scripts 44 downloads

climateStability - Estimating Climate Stability from Climate Model Data

Climate stability measures are not formalized in the literature and tools for generating stability metrics from existing data are nascent. This package provides tools for calculating climate stability from raster data encapsulating climate change as a series of time slices. The methods follow Owens and Guralnick <doi:10.17161/bi.v14i0.9786> Biodiversity Informatics.

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5.08 score 8 stars 30 scripts 243 downloads