deletion_mutator: Randomly delete nucleotides in a sequence

In zcolburn/evolution: Genetic Algorithm For Protein Engineering

Description

Pass in a vector of nucleotides, the probability of single nucleotide deletions for each of the four nucleotides, and return a new vector of nucleotides.

Usage

deletion_mutator(nt_sequence, deletion_rate_A = 0.05,
  deletion_rate_T = 0.05, deletion_rate_C = 0.05, deletion_rate_G = 0.05)

Arguments

nt_sequence	A vector of nucleotides, i.e. c("C","A","T","G","A").
deletion_rate_A	The probability of an "A" deletion occurring.
deletion_rate_T	The probability of an "T" deletion occurring.
deletion_rate_C	The probability of an "C" deletion occurring.
deletion_rate_G	The probability of an "G" deletion occurring.

Value

A vector of nucleotides, i.e. c("C","T","G","A"), with deleted nucleotides omitted.

Examples

set.seed(1)
deletion_mutator(
c("C","A","T","G","A"),
deletion_rate_A = 0.05,
deletion_rate_T = 0.05,
deletion_rate_C = 0.05,
deletion_rate_G = 0.05
)

zcolburn/evolution documentation built on May 19, 2019, 1:48 a.m.