seedy (version 1.3)

deepseq: Deep-sequenced bacterial samples

Description

Simulated deep-sequence samples within a host. Equilibrium population 10000, mutation rate 0.001 per site per generation, genome length 100kb, sampled every 1000 generations until 25000.

Usage

deepseq

format

Deep-sequenced samples were taken at 50 time points.

Examples

data(deepseq)
D <- plotdiversity(deepseq, sample.times=(1:50)*1000, xlab="Time", ylab="Expected pairwise SNPs")