igv.loci: igv.loci Wrapper for igv function to dump table + screenshots...
In mskilab/skitools: Various mskilab R utilties
igv.loci R Documentation
igv.loci
Wrapper for igv function to dump table + screenshots for individual GRanges loci
that have sample column (default Tumor_Sample_Barcode) that is a key into
ind data.table where columns matching col.string are fetched and plotted
IGV host and port are taken from environment variables
Description
Wrapper for igv function to visualize a given (single) mutation in a maf file
Usage
igv.loci(
mut,
ind,
out.path,
sample.key = "Tumor_Sample_Barcode",
sleep = 30,
window = 400,
host = Sys.getenv("IGV_HOST"),
port = Sys.getenv("IGV_PORT"),
overwrite = FALSE,
snapshots = TRUE,
verbose = TRUE
)
Author(s)
Marcin Imielinski
mskilab/skitools documentation built on Aug. 31, 2023, 1:13 p.m.
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| igv.loci | R Documentation |
igv.loci Wrapper for igv function to dump table + screenshots for individual GRanges loci that have sample column (default Tumor_Sample_Barcode) that is a key into ind data.table where columns matching col.string are fetched and plotted IGV host and port are taken from environment variables
Description
Wrapper for igv function to visualize a given (single) mutation in a maf file
Usage
igv.loci(
mut,
ind,
out.path,
sample.key = "Tumor_Sample_Barcode",
sleep = 30,
window = 400,
host = Sys.getenv("IGV_HOST"),
port = Sys.getenv("IGV_PORT"),
overwrite = FALSE,
snapshots = TRUE,
verbose = TRUE
)
Author(s)
Marcin Imielinski
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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