GenerateVars: Generate variants of a given haplotype

In VHIRHepatiques/QSutils: Quasispecies Diversity

Generate variants of a given haplotype

Description

Function to generate a set of variants for a given DNA sequence.

Usage

GenerateVars(seq, nhpl, max.muts, p.muts)

Arguments

seq	A character string with a DNA sequence from which to generate the variants.
nhpl	Number of haplotypes to generate.
max.muts	Maximum number of mutations in each sequence.
p.muts	Vector of length max.muts with the probability of each number of mutations, some of which may be 0.

Details

Given a DNA sequence, nhpl variant haplotypes are generated at random, with a maximum of max.muts substitutions each. The probability of the number of mutations in each haplotype generated is given by the vector p.muts. The positions of the mutations in each haplotype are independent and random.

Value

A character vector with nhpl haplotype variants of the seq sequence.

Author(s)

Mercedes Guerrero-Murillo and Josep Gregori

See Also

GetRandomSeq, Diverge

Examples

set.seed(123)
m1 <- GetRandomSeq(50)

GenerateVars(m1,50,2,c(10,1))

VHIRHepatiques/QSutils documentation built on April 27, 2024, 10:29 p.m.