Plot LD Block Structure Across Chromosomes — plot_ld

Produces a ggplot2-based overview of LD block boundaries and sizes. Requires ggplot2 to be installed.

Usage

plot_ld_blocks(
  blocks,
  colour_by = c("length_bp", "CHR"),
  highlight_blocks = NULL,
  mb_scale = TRUE
)

Arguments

blocks: Data frame of LD blocks (output of run_Big_LD_all_chr). Must contain start.bp, end.bp, and CHR.
colour_by: Character. One of "length_bp" (default, colours by block size) or "CHR" (distinct colour per chromosome).
highlight_blocks: Optional integer vector of row indices in blocks to highlight with a solid border outline. NULL (default) highlights nothing.
mb_scale: Logical. If TRUE (default), x-axis is in Megabases.

Value

A ggplot object.

Examples

# \donttest{
if (requireNamespace("ggplot2", quietly = TRUE)) {
  blocks <- data.frame(
    CHR      = c("1", "1", "2", "2"),
    start.bp = c(1e5, 6e5, 2e5, 8e5),
    end.bp   = c(5e5, 9e5, 7e5, 1.5e6)
  )
  p <- plot_ld_blocks(blocks)
  print(p)
}

# }