calculateTiTv: Calculate transition transversion ratio

Description Usage Arguments Details Value Author(s) Examples

Description

When many point mutations are detected, the ration of transitions to transversions can be used as quality measure to assess the number of false positives.

Usage

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  ## S4 method for signature 'AVASet'
calculateTiTv(object)
  ## S4 method for signature 'MapperSet'
calculateTiTv(object)

Arguments

object

An instance of AVASet or MapperSet storing the detected variants.

Details

For more information about the Ti/Tv ratio see http://www.broadinstitute.org/gsa/wiki/index.php/QC_Methods

Value

A list with two elements: A substitution matrix summarizing all observed substitutions and the transition/transversion ratio.

Author(s)

Hans-Ulrich Klein

Examples

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R453Plus1Toolbox documentation built on May 6, 2019, 2:06 a.m.