filter.variant.file {varitas}

Filter variants in file.

Description

Filter variants from file, and save to output. Wrapper function that opens the variant file, calls filter.variants, and saves the result to file

Usage

filter.variant.file(variant.file, output.file, config.file = NULL,
  caller = c("vardict", "ides", "mutect", "pgm", "consensus"))

Arguments

variant.file

Path to variant file

output.file

Path to output file

config.file

Path to config file to be used. If not supplied, will use the pre-existing VariTAS options.

caller

Name of caller used (needed to match appropriate filters from settings)

Value

None