makeRelationClassesTable: Make relation classes table from 'kin' dataframe.

In rmsharp/nprcmanager: Genetic Tools for Colony Management

Make relation classes table from kin dataframe.

Description

From Relations

Usage

makeRelationClassesTable(kin)

Arguments

kin	a dataframe with columns id1, id2, kinship, and relation. It is a long-form table of pairwise kinships, with relationship categories included for each pair.

Value

A data.frame with the number of instances of following relationship classes: Parent-Offspring, Full-Siblings, Half-Siblings, Grandparent-Grandchild, Full-Cousins, Cousin - Other, Full-Avuncular, Avuncular - Other, Other, and No Relation.

Examples

library(nprcgenekeepr)
suppressMessages(library(dplyr))

qcPed <- nprcgenekeepr::qcPed
bkmat <- kinship(qcPed$id, qcPed$sire, qcPed$dam, qcPed$gen,
                 sparse = FALSE)
kin <- convertRelationships(bkmat, qcPed)
relClasses <- makeRelationClassesTable(kin)
relClasses$`Relationship Class` <-
   as.character(relClasses$`Relationship Class`)
relClassTbl <- kin[!kin$relation == "Self", ] %>%
  group_by(relation) %>%
  summarise(count = n())
relClassTbl

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