TCGAsampleSelect: Select samples from barcodes from lookup table

In waldronlab/TCGAutils: TCGA utility functions for data management

Select samples from barcodes from lookup table

Description

The TCGA barcode contains several pieces of information which can be parsed by the TCGAbarcode function. To select a specific type of sample, enter the appropriate sampleCode argument from the lookup table. See lookup table in data("sampleTypes"). Barcode inputs can be a character vector or a CharacterList object.

Usage

TCGAsampleSelect(barcodes, sampleCodes)

Arguments

barcodes	Either a TCGA barcode vector or CharacterList containing patient identifiers, sample, portion, plate, and center codes.
sampleCodes	Either a character or numeric vector of TCGA sample codes. See the sampleType dataset.

Value

A logical vector or LogicalList of the same length as 'barcodes' indicating sample type matches

Examples

example("TCGAbarcode")
TCGAsampleSelect(barcodes, c(11, 01))

waldronlab/TCGAutils documentation built on Feb. 25, 2024, midnight