mut_type: Retrieve base substitution types from a VCF object
In MutationalPatterns: Comprehensive genome-wide analysis of mutational processes
Description
Usage
Arguments
Value
See Also
Examples
Description
A function to extract the base substitutions from a vcf and translate to
the 6 common base substitution types.
Usage
1
mut_type(vcf)
Arguments
vcf
A CollapsedVCF object
Value
Character vector with base substitution types
See Also
Examples
1
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3
4
5
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7
## See the 'read_vcfs_as_granges()' example for how we obtained the
## following data:
vcfs <- readRDS(system.file("states/read_vcfs_as_granges_output.rds",
package = "MutationalPatterns"
))
mut_type(vcfs[[1]])
MutationalPatterns documentation built on Nov. 14, 2020, 2:03 a.m.
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Description Usage Arguments Value See Also Examples
Description
A function to extract the base substitutions from a vcf and translate to the 6 common base substitution types.
Usage
1 | mut_type(vcf)
|
Arguments
vcf |
A CollapsedVCF object |
Value
Character vector with base substitution types
See Also
Examples
1 2 3 4 5 6 7 | ## See the 'read_vcfs_as_granges()' example for how we obtained the
## following data:
vcfs <- readRDS(system.file("states/read_vcfs_as_granges_output.rds",
package = "MutationalPatterns"
))
mut_type(vcfs[[1]])
|
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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