plot_cnvr_source: Plotting CNVs by the source information

In JH-Zhou/HandyCNV: HandyCNV: An R package for Standardized Summary, Annotation, Comparison, and Visualization of CNV, CNVR and ROH

Description

Plotting CNVs by the source information

Usage

plot_cnvr_source(
  cnvr,
  clean_cnv,
  pedigree,
  Frequent_threshold,
  height_1 = 30,
  width_1 = 15,
  col_0 = "hotpink",
  col_1 = "turquoise",
  col_2 = "gray",
  col_3 = "tomato",
  col_4 = "deepskyblue",
  report_id = TRUE,
  folder = "plot_cnvr_source"
)

Arguments

cnvr	standard file was generated by 'call_cnvr' function, should contain the frequency of CNVR
clean_cnv	standard file was generated by 'cnv_clean' function
pedigree	include 'Sample_ID', 'Father_ID', 'Mother_ID', 'Country', 'Group'
Frequent_threshold	Integer, indicate the frequency of CNVR
height_1	set the height of plot
width_1	set the width of plot
col_0	set color for 0 copy of CNV
col_1	set color for 1 copy of CNV
col_2	set color for 2 copy of CNV (which might be ROH)
col_3	set color for 3 copy of CNV
col_4	set color for 4 copy of CNV
report_id	report the sample ID while plotting
folder	set the folder to save results

Value

CNVR source plot

JH-Zhou/HandyCNV documentation built on Dec. 18, 2021, 12:25 a.m.