mutFilterAdj: mutFilterAdj
In likelet/CaMutQC: An R Package for Comprehensive Filtration and Selection of Cancer Somatic Mutations
mutFilterAdj R Documentation
mutFilterAdj
Description
Filter SNVs with adjacent indels
Usage
mutFilterAdj(maf, maxIndelLen = 50, minInterval = 10)
Arguments
maf
An MAF data frame, generated by vcfToMAF function.
maxIndelLen
Maximum length of indel accepted to be included.
Default: 50
minInterval
Minimum length of interval between an SNV and an indel
accepted to be included. Default: 10
Value
An MAF data frame after filtration for adjacent variants.
Examples
maf <- vcfToMAF(system.file("extdata",
"WES_EA_T_1_mutect2.vep.vcf", package="CaMutQC"))
mafF <- mutFilterAdj(maf)
likelet/CaMutQC documentation built on Aug. 17, 2024, 4 a.m.
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| mutFilterAdj | R Documentation |
mutFilterAdj
Description
Filter SNVs with adjacent indels
Usage
mutFilterAdj(maf, maxIndelLen = 50, minInterval = 10)
Arguments
maf |
An MAF data frame, generated by |
maxIndelLen |
Maximum length of indel accepted to be included. Default: 50 |
minInterval |
Minimum length of interval between an SNV and an indel accepted to be included. Default: 10 |
Value
An MAF data frame after filtration for adjacent variants.
Examples
maf <- vcfToMAF(system.file("extdata",
"WES_EA_T_1_mutect2.vep.vcf", package="CaMutQC"))
mafF <- mutFilterAdj(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.
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