QC Visualization Panel — bb_plot_qc • bambamR

Creates a panel of QC plots from a bb_qc object, including read quality per position, GC content distribution, and read length distribution.

Usage

bb_plot_qc(qc_object, which = c("all", "quality", "gc", "length"))

Arguments

qc_object: A bb_qc object from bb_qc().
which: Character. Which plot to generate: "quality", "gc", "length", or "all". Default "all".

Value

A ggplot2::ggplot object (or a patchwork composition if which = "all" and patchwork is available).

Examples

# \donttest{
tmp <- tempfile(fileext = ".fastq")
writeLines(c(
  "@r1", "ACGTACGT", "+", "IIIIIIII",
  "@r2", "GCGCGCGC", "+", "HHHHHHHH",
  "@r3", "ATATGCGC", "+", "GGGGFFFF"
), tmp)
qc <- bb_qc(fastq_path = tmp)
bb_plot_qc(qc)

# }