readgmt: read.gmt
In galder-max/GSEAlite: GSEA lite performs simple GSEA analysis with few useful functions
Description
Usage
Arguments
Value
Author(s)
See Also
Examples
Description
reads a gmt file on your disk to the memory.
Usage
1
readgmt(path.gmt)
Arguments
path.gmt
the path to the gmt file on your disk.
Value
named list of genesets. Each element is a gene set, i.e. a vector of
characters representing official gene symbols read from the gmt file
Author(s)
maxime.tarabichi@ulb.ac.be
See Also
GSEA.listofgenes;
Examples
1
2
3
4
5
6
7
8
## collections at: http://www.broadinstitute.org/gsea/msigdb/collections.jsp
path<-"/Users/yourUserName/Desktop/c5.gmt"
lG<-readgmt(path)
##use function GSEA.listofgenes to run GSEA analysis on the collection.
res<-GSEA.listofgenes(m,lG,o,1000)
fdr<-computeFDRmedian(res)
str(fdr)
galder-max/GSEAlite documentation built on Jan. 30, 2021, 10:50 p.m.
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Description Usage Arguments Value Author(s) See Also Examples
Description
reads a gmt file on your disk to the memory.
Usage
1 | readgmt(path.gmt)
|
Arguments
path.gmt |
the path to the gmt file on your disk. |
Value
named list of genesets. Each element is a gene set, i.e. a vector of characters representing official gene symbols read from the gmt file
Author(s)
maxime.tarabichi@ulb.ac.be
See Also
GSEA.listofgenes;
Examples
1 2 3 4 5 6 7 8 | ## collections at: http://www.broadinstitute.org/gsea/msigdb/collections.jsp
path<-"/Users/yourUserName/Desktop/c5.gmt"
lG<-readgmt(path)
##use function GSEA.listofgenes to run GSEA analysis on the collection.
res<-GSEA.listofgenes(m,lG,o,1000)
fdr<-computeFDRmedian(res)
str(fdr)
|
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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