plotPedigree: Plot Pedigree

In jlab-code/AlphaBeta: Computational inference of epimutation rates and spectra from high-throughput DNA methylation data in plants

Plot Pedigree

Description

Plotting Pedigree tree

Usage

plotPedigree(
  nodelist,
  edgelist,
  sampling.design,
  out.pdf = NULL,
  output.dir = NULL,
  plot.width = 11,
  plot.height = 8,
  vertex.label = NULL,
  vertex.size = 12,
  aspect.ratio = 2.5
)

Arguments

nodelist	input file containing information on generation times and pedigree lineages "extdata" called "nodelist.fn"
edgelist	input file containing edges "edgelist.fn"
sampling.design	"progenitor.intermediate"; "sibling"; "progenitor.endpoint";"tree"
out.pdf	output file name
output.dir	output directory
plot.width	plotting with
plot.height	plotting height
vertex.label	label vertix
vertex.size	size of vertix
aspect.ratio	aspect.ration

Value

plot pedigree matrices file.

Examples

# Get some toy data
file <- system.file("extdata/dm/","nodelist.fn", package="AlphaBeta")
file2 <- system.file("extdata/dm/","edgelist.fn", package="AlphaBeta")
plotPedigree(nodelist = file, edgelist=file2, sampling.design="sibling",vertex.label=TRUE,
 out.pdf="Plot", output.dir=getwd() )

jlab-code/AlphaBeta documentation built on April 23, 2022, 11:02 a.m.