formatCOSMIC: Read in a COSMIC file and format it for usage in TMBleR
In acc-bioinfo/TMBleR: Tumor Mutational Burden Quantification From Gene Panels And WES
Description
Usage
Arguments
Value
Description
The objective of this script is to convert a COSMIC .vcf file into a R object
Usage
1
formatCOSMIC(input_file, assembly, output_file = "COSMIC")
Arguments
input_file
path to CosmicCodingMuts.vcf file downloaded following the vignette instructions
assembly
either hg19 or hg38
output_file
path to where to save the converted .vcf file into a .rda
Value
nothing
acc-bioinfo/TMBleR documentation built on Dec. 18, 2021, 10:21 p.m.
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Description Usage Arguments Value
Description
The objective of this script is to convert a COSMIC .vcf file into a R object
Usage
1 | formatCOSMIC(input_file, assembly, output_file = "COSMIC")
|
Arguments
input_file |
path to CosmicCodingMuts.vcf file downloaded following the vignette instructions |
assembly |
either hg19 or hg38 |
output_file |
path to where to save the converted .vcf file into a .rda |
Value
nothing
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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