list_cosmic: List COSMIC sample names
In seqCAT: High Throughput Sequencing Cell Authentication Toolkit

Description Usage Arguments Details Value Examples

List all available samples in the COSMIC database

1	list_cosmic(file_path)

file_path

The file containing COSMIC data (path).

This function lists the available sample names in the provided COSMIC file (e.g. CosmicCLP_MutantExport.tsv.gz), and takes about half the time it takes to read the full file with the read_cosmic function, making it useful for just seeing if your particular sample is listed in COSMIC or not.

A vector of sample names

file <- system.file("extdata",
                    "subset_CosmicCLP_MutantExport.tsv.gz",
                    package = "seqCAT")
cosmic_samples <- list_cosmic(file)