circos_check_chromosomes: Make sure I haven't mixed and matched genomes.

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Make sure I haven't mixed and matched genomes.

Description

This is mostly intended to stop things early if I accidently use the wrong reference genome, but it currently does return the number of observed chrosomes.

Usage

circos_check_chromosomes(
  cfg,
  df,
  annot_chr_column = "chr",
  annot_gene_column = "rownames",
  df_chr_column = "names",
  df_gene_column = NULL
)

Arguments

cfg	circos configuration object.
df	dataframe of chromsome information.
annot_chr_column	Column containing the chromosome names.
annot_gene_column	Column containing the gene IDs.
df_chr_column	Column in the cfg df containing the chromosome names.
df_gene_column	Column containing the gene names.

elsayed-lab/hpgltools documentation built on April 8, 2024, 1:30 a.m.