palimpsest_input: palimpsest_input
In FunGeST/Palimpsest: Package
Description
Usage
Arguments
Examples
View source: R/palimpsest_input.R
Description
Creates the list of input matrices of the numbers and proportions of each mutation category (of one mutation type, e.g. SBS mutation categories) in each sample.
Usage
1
palimpsest_input(vcf = NULL, Type = NULL, mutypes = NA)
Arguments
vcf
The input VCF file from which a matrix of mutation categories is to be made.
Type
Mutation type (SBS, DBS, ID or SV).
mutypes
leave blank to use default COSMIC categories (recommeneded), or add your own.
Examples
1
DBS_input <- palimpsest_input(vcf=vcf, Type = "DBS")
FunGeST/Palimpsest documentation built on June 10, 2021, 6:35 p.m.
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Description Usage Arguments Examples
View source: R/palimpsest_input.R
Description
Creates the list of input matrices of the numbers and proportions of each mutation category (of one mutation type, e.g. SBS mutation categories) in each sample.
Usage
1 | palimpsest_input(vcf = NULL, Type = NULL, mutypes = NA)
|
Arguments
vcf |
The input VCF file from which a matrix of mutation categories is to be made. |
Type |
Mutation type (SBS, DBS, ID or SV). |
mutypes |
leave blank to use default COSMIC categories (recommeneded), or add your own. |
Examples
1 | DBS_input <- palimpsest_input(vcf=vcf, Type = "DBS")
|
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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