filterVariantType: Filter variants by the specified type
In acc-bioinfo/TMBleR: Tumor Mutational Burden Quantification From Gene Panels And WES
Description
Usage
Arguments
Value
Author(s)
View source: R/filterVariantType.R
Description
This function filters out from the variants of the input vcf file those
corresponding to the type specified in the variantType argument: synonymous,
nonsynonymous, frameshift, nonsense, not translated or a combination of them.
Usage
1
filterVariantType(vcf, assembly, variantType)
Arguments
vcf
a CollapsedVCF or data.frame object containing
variants
assembly
human genome assembly: "hg19" or "hg38"
variantType
type of variant to remove. Possible values are: synonymous,
nonsynonymous, frameshift, nonsense, not translated or a combination of them.
Value
Returns a CollapsedVCF or data.frame object containing
those variants which passed the filter.
Author(s)
Laura Fancello
acc-bioinfo/TMBleR documentation built on Dec. 18, 2021, 10:21 p.m.
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Description Usage Arguments Value Author(s)
View source: R/filterVariantType.R
Description
This function filters out from the variants of the input vcf file those corresponding to the type specified in the variantType argument: synonymous, nonsynonymous, frameshift, nonsense, not translated or a combination of them.
Usage
1 | filterVariantType(vcf, assembly, variantType)
|
Arguments
vcf |
a |
assembly |
human genome assembly: "hg19" or "hg38" |
variantType |
type of variant to remove. Possible values are: synonymous, nonsynonymous, frameshift, nonsense, not translated or a combination of them. |
Value
Returns a CollapsedVCF or data.frame object containing
those variants which passed the filter.
Author(s)
Laura Fancello
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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