visPed: Visualize a pedigree with cancer affection statuses and other...

In gavin-k-lee/visPed: Visualizes Pedigrees

Description

This function relies on the kinship2 package

Usage

visPed(
  ped,
  annot.cancers = "all",
  annot.feature = "CurAge",
  title = "Your Pedigree"
)

Arguments

ped	a pedigree that contains ID, Sex, MotherID, FatherID, isProband, CurAge It is assumed that in this data.frame, Sex = 1 if male, Sex = 0 if female and Sex = NA if unkonwn Affliction is coded in "isAffXX" columns, where XX are short names of cancers The age of diagnosis is correspondingly coded in "AgeXX" columns
annot.cancers	the cancers shortnames to display. When set to default /codeNULL, the top four cancers will be displayed.
annot.feature	ONE feature that we would get annotation from pedigree, one of the choices from c("Ancestry","Twins","CurAge","race")
title	a string for the title on the plot

Examples

visPed(test_fam_1)

gavin-k-lee/visPed documentation built on July 22, 2021, 1:09 p.m.