nPVR: Calculates a Phylogenetic Correlation From a Network Using...

In cpatarroyo/lamfutools: Set of Population Genetics and Miscelaneous Tools For Organisms With Mixed Reproduction

Description

This function calculates the phylogenetic correlation between the genetic distance calculated from a minimal spanning network. This uses the average commute time to calculate the distance between the nodes of the netowrk and it takes phenotypic information from the user. Each individual must be unique (incompatible with various individuals with the same genotype).

Usage

nPVR(pop, traits, dismet = NULL, pvrmet = NULL, gendist = NULL)

Arguments

pop	Population in a poppr format. Can be imported from a Genalex formatted file.
traits	Vector of the phenotypic characteristics of the members of the populations.
dismet	Metric for distance in the network. Defaults to normalized average commute time.
pvrmet	Metric for the correlation coefficient. Defaults to Moran's I
gendist	Metric for the genetic distance to elaborate the MSN. Defaults to Bruvo distance. Other options include: "nei" for Nei's distance, "bitwise" for Bitwise distance, "absolute" for absolute distance, "rogers" for Roger's distance, and "reynolds" for Reynold's distance.

Value

Returns the eigenvalue correlation between the traits given and the distance between tne nodes in the network

cpatarroyo/lamfutools documentation built on Dec. 19, 2021, 6:07 p.m.