readGmt {PGSEA} | R Documentation |
This function will read a "gmt" file into R, returning results as a list of SMC objects.
readGmt(fname)
fname |
File name of concepts in .gmt format |
The .gmt file format is a tab delimited file format used to store gene lists. These gene lists are stored row by row. The first column is the gene set name. The second column is a brief description, and every entry after that is a gene within that gene set.
A list of SMC objects
Karl Dykema <karl.dykema@vai.org>
http://www.broad.mit.edu/gsea/doc/data_formats.html#gmt
datadir <- system.file("data", package = "PGSEA") sample <- readGmt(file.path(datadir, "sample.gmt")) str(sample)