get_msigdb_metadata: Create a metadata dataframe of msigdb data, this hopefully...

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Create a metadata dataframe of msigdb data, this hopefully will be usable to fill the fData slot of a gsva returned expressionset.

Description

Create a metadata dataframe of msigdb data, this hopefully will be usable to fill the fData slot of a gsva returned expressionset.

Usage

get_msigdb_metadata(
  msig_db = "msigdb_v6.2.xml",
  wanted_meta = c("ORGANISM", "DESCRIPTION_BRIEF", "AUTHORS", "PMID")
)

Arguments

msig_db	Filename containing the MSigDB metadata.
wanted_meta	Choose metadata columns of interest.

Value

list containing 2 data frames: all metadata from broad, and the set matching the sig_data GeneSets.

See Also

[xml2] [rvest]

elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.