read_gmt: Read gene set file with GMT extension to a list
In jdreyf/ezlimma: Streamlines and extends limma package
read_gmt R Documentation
Read gene set file with GMT extension to a list
Description
Read Gene Matrix Transposed (gmt) file and return a list. The first column of
the GMT are gene set names, the second are descriptions, then are genes.
Usage
read_gmt(file.path, strip.nm = "REACTOME_")
Arguments
file.path
Path to the GMT file.
strip.nm
Regular expression which is removed from gene set names. Case is ignored.
Details
There are many functions in R for reading GMT files; this one was partially adapted from gmt2list
in the cogena package.
Value
List of gene sets. Each element has a gene set name, description, and genes.
jdreyf/ezlimma documentation built on Sept. 16, 2024, 2:08 a.m.
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| read_gmt | R Documentation |
Read gene set file with GMT extension to a list
Description
Read Gene Matrix Transposed (gmt) file and return a list. The first column of the GMT are gene set names, the second are descriptions, then are genes.
Usage
read_gmt(file.path, strip.nm = "REACTOME_")
Arguments
file.path |
Path to the GMT file. |
strip.nm |
Regular expression which is removed from gene set names. Case is ignored. |
Details
There are many functions in R for reading GMT files; this one was partially adapted from gmt2list
in the cogena package.
Value
List of gene sets. Each element has a gene set name, description, and genes.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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