README.md

In jeffreyevans/GeNetIt: Spatial Graph-Theoretic Genetic Gravity Modelling

GeNetIt (CRAN 0.1-6, development 0.1-7)

GeNetIt is an R package for spatial graph-theoretic gravity modeling. The model framework is applicable for other types of matrix-based spatial flow (from-to) problems. Includes functions for constructing spatial graphs, sampling, summarizing associated raster variables and building unconstrained and singly constrained gravity models following Murphy et al., (2010).

As of version 0.1-6 all support of raster (RasterLayer, RasterStack) and sp (SpatialPointsDataFrame) class objects has ended, replaced by terra (SpatRaster) and sf (sf POINT) classes.

You can access a full tutorial here

Available functions in GeNetIt 0.1-6 are:

| GeNetIt Function | Description | |:-----------------------------|:----------------------------------------------------------------------------------------| | adj.matrix | Creates binary adjacency matrix of from-to (joins) structure of graph | build.node.data | Build node data | compare.models | Compare competing hypothesis (models) | dmatrix.df | Distance matrix to data.frame | dps | dps genetic distance matrix for Columbia spotted frog (Rana luteiventris) | flow | Convert distance matrix to flow (1-d) | graph.metrics | Calculates a suite of metrics on the structure of the graph | graph.statistics | Raster statistics for edges (lines) with buffer argument for multi-scale assessment | gravity.es | Effect size for a gravity model | gravity | Gravity model | knn.graph | K Nearest Neighbor or saturated Graph | node.statistics | Raster statistics for nodes (points) | plot.gravity | plot generic for a gravity model object | predict.gravity | predict generic gravity model | print.gravity | print generic gravity model | ralu.model | Columbia spotted frog (Rana luteiventris) data for specifying gravity model. Note, the data.frame is already log transformed. | ralu.site | Subset of site-level spatial point data for Columbia spotted frog (Rana luteiventris) | rasters | Subset of raster data for Columbia spotted frog (Rana luteiventris) | summary.gravity | summary generic for gravity model objects | area.graph.statistics | Depreciated, please use graph.statistics with buffer argument

Bugs: Users are encouraged to report bugs here. Go to issues in the menu above, and press new issue to start a new bug report, documentation correction or feature request. You can direct questions to [e-mail].

To install GeNetIt in R use install.packages() to download curent stable release from CRAN

or, for the development version, run the following (requires the remotes package): remotes::install_github("jeffreyevans/GeNetIt")

jeffreyevans/GeNetIt documentation built on June 28, 2023, 5:14 a.m.