Get mutations from SCOUT ground truth

Returns the path to the sequencing mutations RDS file for a given SPN, sample type, coverage and purity.

Usage

get_mutations(spn, type, coverage = NA, purity = NA)

Arguments

spn

SPN identifier, e.g. "SPN01".

type

Sample type: "tumour" or "normal".

coverage

Sequencing coverage (integer, e.g. 100). Required for type = "tumour".

purity

Sample purity between 0 and 1 (e.g. 0.9). Required for type = "tumour".

Value

Path to the mutations RDS file.

Examples

if (FALSE) { # \dontrun{
path <- get_mutations("SPN01", type = "tumour", coverage = 100, purity = 0.9)
readRDS(path)
} # }