dCG.type: Get mutation type (5-6) of CpG mutations

In kdkorthauer/MADGiC: Fits an empirical Bayesian hierarchical model to obtain posterior probabilities that each gene is a driver.

Description

Given a sequence of two characters, the function returns the type of mutation: transition from CpG G/C (5), or transversion from CpG G/C (6).

Usage

  dCG.type(x)

Arguments

x	a character of length two where each character is either "A","T","G", or "C". Only the 6 two letter codes that begin with "C" or "G" are allowed. For example, x could be "CT".

Details

used internally in mut.type.converter

Value

an integer indicator of mutation type, where 1=transition from CpG C/G and 2=transversion from CpG C/G. For example x="AG" would return 1 (for transition).

Note

This internal function is not intended to be called by the user.

kdkorthauer/MADGiC documentation built on June 13, 2020, 1:35 p.m.