read_msigdb: Read MSigDB GMT file into a nested list of databases and...
In HuntsmanCancerInstitute/hciRdata: Datasets for hciR
read_msigdb R Documentation
Read MSigDB GMT file into a nested list of databases and genes sets
Description
Reads MSigDB GMT files from http://software.broadinstitute.org/gsea/msigdb/collections.jsp
Usage
read_msigdb(gmt)
Arguments
gmt
a GMT file from MSigDB
Value
A nested list of databases and genes sets (if only one database in GMT file,
then a list of gene sets only)
Author(s)
Chris Stubben
Examples
gmt <- system.file("extdata", "c2.cp.v2023.2.Hs.symbols.gmt", package = "hciRdata")
msig_path <- read_msigdb(gmt)
# a list with 9 pathways dbs
sapply(msig_path, length)
msig_path$KEGG[1:3]
HuntsmanCancerInstitute/hciRdata documentation built on June 28, 2024, 8:46 p.m.
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| read_msigdb | R Documentation |
Read MSigDB GMT file into a nested list of databases and genes sets
Description
Reads MSigDB GMT files from http://software.broadinstitute.org/gsea/msigdb/collections.jsp
Usage
read_msigdb(gmt)
Arguments
gmt |
a GMT file from MSigDB |
Value
A nested list of databases and genes sets (if only one database in GMT file, then a list of gene sets only)
Author(s)
Chris Stubben
Examples
gmt <- system.file("extdata", "c2.cp.v2023.2.Hs.symbols.gmt", package = "hciRdata")
msig_path <- read_msigdb(gmt)
# a list with 9 pathways dbs
sapply(msig_path, length)
msig_path$KEGG[1:3]
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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