filterThreshold: Filters kinship to remove rows with kinship values less than...

In rmsharp/nprcmanager: Genetic Tools for Colony Management

Filters kinship to remove rows with kinship values less than the specified threshold

Description

Part of Group Formation Filters kinship values less than the specified threshold from a long-format table of kinship values.

Usage

filterThreshold(kin, threshold = 0.015625)

Arguments

kin	a dataframe with columns id1, id2, and kinship. This is the kinship data reformatted from a matrix, to a long-format table.
threshold	numeric value representing the minimum kinship level to be considered in group formation. Pairwise kinship below this level will be ignored.

Value

The kinship matrix with all kinship relationships below the threshold value removed.

Examples

library(nprcgenekeepr)
ped <- nprcgenekeepr::lacy1989Ped
ped$gen <- findGeneration(ped$id, ped$sire, ped$dam)
kmat <- kinship(ped$id, ped$sire, ped$dam, ped$gen)
kin <- kinMatrix2LongForm(kmat, removeDups = FALSE)
kinFiltered_0.3 <- filterThreshold(kin, threshold = 0.3)
kinFiltered_0.1 <- filterThreshold(kin, threshold = 0.1)

rmsharp/nprcmanager documentation built on Feb. 2, 2025, 12:45 a.m.