plot_circos_sv: OmicCircos plotting from data.frame from GRIDSS bedpe

In brucemoran/somenone: R functions required by the somenone NextFlow nf-core pipeline

OmicCircos plotting from data.frame from GRIDSS bedpe

Description

OmicCircos plotting from data.frame from GRIDSS bedpe

Usage

plot_circos_sv(
  input_df,
  output_path,
  which_genome,
  cytoband,
  chimerkb4 = FALSE
)

Arguments

input_df	data.frame with chrom1, start1, end1, symbol1, chrom2, start2, end2, symbol2, sampleID, colour columns
output_path	path to where PDF file with output plot is written N.B. two pages, one with Circos plot and one with legend
which_genome,	genome assembly used ("hg19", "hg38")
cytoband	internal file downloaded in prep_plot_circos_sv
chimerkb4	boolean to specify using chimerkb4 data

Value

none, prints plot to file

brucemoran/somenone documentation built on Nov. 1, 2022, 3:56 p.m.