Get tumourevo driver annotation file paths — get_tumourevo_driver • SCOUT

Get tumourevo driver annotation file paths

Usage

get_tumourevo_driver(
  spn,
  coverage,
  purity,
  vcf_caller,
  cna_caller,
  sample = NULL
)

Arguments

spn: SPN identifier, e.g. "SPN01".
coverage: Sequencing coverage (integer).
purity: Sample purity: 0.9, 0.6, or 0.3.
vcf_caller: VCF caller: "mutect2" or "strelka".
cna_caller: CNA caller: "ascat" or "sequenza".
sample: Sample name. If NULL, returns paths for all samples.

Value

Named list of file paths to driver RDS files.

Examples

if (FALSE) { # \dontrun{
get_tumourevo_driver("SPN04", 50, 0.6, "mutect2", "sequenza", "SPN04_1.1")
} # }