ggpedigree: ggpedigree.

In susjoh/ggpedigree: Draws pedigrees with ggplot2

Description

ggpedigree.

ggpedigree: Plot a pedigree

Usage

ggpedigree(pedigree, cohort = NULL, sex = NULL, family = NULL,
  id.labels = FALSE, remove.singletons = TRUE,
  colour.parent.lines = TRUE, print.cohort.labels = TRUE,
  plot.unk.cohort = TRUE, single.cohort.x.shuffle = TRUE,
  randomise.x = TRUE, return.plot.tables = FALSE,
  suppress.plot = FALSE, line.col.mother = "#E41A1C",
  line.col.father = "#377EB8", line.alpha = 0.3, point.size = 2,
  point.colour = "black", point.alpha = 1, gg.theme = NULL,
  xlab = "", ylab = "", bg.colour = "ivory", plot.margin = c(1.5,
  1.5, 1.5, 1.5), axis.text.colour = "darkgrey")

Arguments

pedigree	A data frame of id, dam and sire
cohort	Default NULL. An optional vector assigning a cohort to each id. If NULL then uses kindepth function in kinship2 to assign IDs to cohorts.
sex	Default NULL. An optional vector assigning a sex to each id
family	Default NULL. An optional vector assigning a family to each id (NOT WORKING YET)
id.labels	logical. Default FALSE. Print the IDs on the pedigree.
remove.singletons	logical. Default TRUE. Remove IDs with no offspring or parents assigned.
colour.parent.lines	logical. Default TRUE. Colours lines based on maternal and paternal links.
print.cohort.labels	logical. Default TRUE. Prints cohort ideas on left hand side of plot.
plot.unk.cohort	logical. Default TRUE. Show IDs of unknown cohort.
single.cohort.x.shuffle	logical. Default TRUE. Randomly assign left to right position of IDs.
randomise.x	logical. Default TRUE.
return.plot.tables	logical. Default FALSE. Returns an object with the line and point data used for the plot.
suppress.plot	logical. Default FALSE. Print plot or not.
line.col.mother	line colour for mother
line.col.father	line colour for father
line.alpha	line alpha for plot
point.size	point size
point.colour	point colour
point.alpha	point alpha
gg.theme	extra theme information for ggplot
xlab	x axis label
ylab	y axis label
bg.colour	background colour
plot.margin	plot margin dimensions
axis.text.colour	axis text colour

susjoh/ggpedigree documentation built on May 30, 2019, 8:43 p.m.