querryEstablished: This function is used to find which elements of a population...

In rSHAPE: Simulated Haploid Asexual Population Evolution

Description

This function is used to find which elements of a population matrix are deemed as established. Established is determined by having a number of individuals greater than or equal to a definable proportion of the summed community size.

Usage

querryEstablished(func_inMatrix, func_sizeCol = "popSize",
  func_fitCol = "fitness", func_estProp = 0.01)

Arguments

func_inMatrix	This is a matrix which must contain at least one column named as func_sizeCol which contains the number of individuals in the communities' populations. But it may also be required to include a column func_fitCol if func_estProp is "Desai".
func_sizeCol	DO NOT MODIFY - this is the column name that is querried to find population sizes
func_fitCol	DO NOT MODIFY - this is the column name that is querried to find population fitness - only important if func_estProp is set to "Desai"
func_estProp	If this value is less than 1 - This is the proportion of the current community size which is used to define a population as established it returns the rows of. If this value is greater than 1, it is the minimum number of individuals required before a population is considered as established. Lastly, it can be the character string "Desai", at which point - as per Desai 2007 - a lineage is established once it has 1/s individuals.

Value

A subset form of the input func_inMatrix matrix object containing the populations which are calculated as established.

Note

There is no example as this cannot work outisde of a runSHAPE call, it requires data produced by the simulation experiment.

rSHAPE documentation built on July 19, 2019, 5:05 p.m.