extract_variants_from_maf: Extract variants from a maf object
In campbio/BAGEL: Novel Mutational Signature Analysis
Description
Usage
Arguments
Value
Examples
Description
Add description
Usage
1
extract_variants_from_maf(maf, extra_fields = NULL)
Arguments
maf
MAF object loaded by read.maf() from the 'maftools' package
extra_fields
Optionally extract additional columns from the
maf object. Default NULL.
Value
Returns a data.table of variants from a maf which can be used to
create a bagel object.
Examples
1
2
3
4
5
maf_file <- system.file("testdata", "public_TCGA.LUSC.maf",
package = "BAGEL")
library(maftools)
maf <- read.maf(maf_file)
variants <- extract_variants_from_maf(maf = maf)
campbio/BAGEL documentation built on Oct. 6, 2020, 3:59 a.m.
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.
Description Usage Arguments Value Examples
Description
Add description
Usage
1 | extract_variants_from_maf(maf, extra_fields = NULL)
|
Arguments
maf |
MAF object loaded by read.maf() from the 'maftools' package |
extra_fields |
Optionally extract additional columns from the
maf object. Default |
Value
Returns a data.table of variants from a maf which can be used to
create a bagel object.
Examples
1 2 3 4 5 | maf_file <- system.file("testdata", "public_TCGA.LUSC.maf",
package = "BAGEL")
library(maftools)
maf <- read.maf(maf_file)
variants <- extract_variants_from_maf(maf = maf)
|
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.
Embedding an R snippet on your website
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.