Export and add expression data to cBioPortal dataset

This should be run in an existing dataset package root. Note that there are a number of different options generated by the STAR Salmon pipeline. cBioPortal has confirmed that they prefer normalized counts gene_tpm.tsv.

Usage

cbp_add_expression(expression_data, expression_data_raw = NULL, verbose = TRUE)

Arguments

expression_data

Syn id of normalized gene counts results (default to TPM). See details.

expression_data_raw

(Optional) Syn id of raw counts if curators explicitly ask for it.

verbose

Whether to be chatty.