Get tumourevo subclonal deconvolution result paths — get_tumourevo_subclonal • SCOUT

Get tumourevo subclonal deconvolution result paths

Usage

get_tumourevo_subclonal(
  spn,
  coverage,
  purity,
  vcf_caller,
  cna_caller,
  tool,
  sample
)

Arguments

spn: SPN identifier.
coverage: Sequencing coverage (integer).
purity: Sample purity (0–1).
vcf_caller: VCF caller: "mutect2" or "strelka".
cna_caller: CNA caller: "ascat" or "sequenza".
tool: Deconvolution tool: "mobster", "pyclonevi", "ctree", or "viber".
sample: Sample name.

Value

Named list of file paths.

Examples

if (FALSE) { # \dontrun{
get_tumourevo_subclonal("SPN01", 100, 0.9, "mutect2", "ascat", "mobster", "SPN01_1")
} # }