titv {maftools} | R Documentation

## Classifies SNPs into transitions and transversions

### Description

takes output generated by read.maf and classifies Single Nucleotide Variants into Transitions and Transversions.

### Usage

    titv(maf, useSyn = FALSE, plot = TRUE, file = NULL)

### Arguments

`maf` | an `MAF` object generated by `read.maf`
`useSyn` | Logical. Whether to include synonymous variants in analysis. Defaults to FALSE.
`plot` | plots a titv fractions. default TRUE.
`file` | basename for output file name. If given writes summaries to output file. Default NULL.

### Value

list of `data.frame`s with Transitions and Transversions summary.

### See Also

`plotTiTv`

### Examples

    laml.maf <- system.file("extdata", "tcga_laml.maf.gz", package = "maftools")
    laml <- read.maf(maf = laml.maf)
    laml.titv = titv(maf = laml, useSyn = TRUE)

[Package maftools version 2.4.12 Index]