The spatial interpolation of genetic distances between samples is based on a modified kriging method that accepts a genetic distance matrix and generates a map of probability of lineage presence. This package also offers tools to generate a map of potential contact zones between groups with user-defined thresholds in the tree to account for old and recent divergence. Additionally, it has functions for IDW interpolation using genetic data and midpoints.
|Author||Pedro Tarroso, Guillermo Velo-Anton, Silvia Carvalho|
|Date of publication||2015-11-04 02:00:17|
|Maintainer||Pedro Tarroso <email@example.com>|
|License||GPL (>= 2)|
|http://www.r-project.org, http://webpages.icav.up.pt/pessoas/ptarroso/phylin/phylin.html, https://github.com/ptarroso/phylin|
d.gen: Genetic distance matrix between vipers and lineages.
extract.var: Extact pairwise values from a matrix in a specified order.
gen.variogram: Semi-variogram with the genetic distance matrix
grid: Grid centroids for the Iberian Peninsula.
grid.image: Simple plot of interpolated grid.
gv.model: Fit a model to the semi-variogram.
idw: Inverse Distance Weighting interpolation
intgen.idw: Interpolation of genetic distances to a a grid of points.
krig: Simple and ordinary kriging.
midpoints: Midpoints between pairs of coordinates
mpinv: Generalized inverse of a matrix
mtest.gv: Tests if a 'gv' object has a model.
multispecies: Summarizes data from multiple species.
phylin-package: Phylogenetic Landscape Interpolation.
plot.gv: Plot a 'gv' object
predict.gv: Predict method for 'gen.variogram' object with model.
real.dist: Real distance matrix for samples and interpolation locations.
summary.gv: Summary for 'gv' object
vipers: Vipers sample locations for 'd.gen' dataset.