msHOT: modifying Hudson's ms simulator to incorporate crossover and gene conversion hotspots

Open Access

6 December 2006

journal article
research article
Published by Oxford University Press (OUP) in Bioinformatics

Vol. 23 (4) , 520-521
https://doi.org/10.1093/bioinformatics/btl622

Abstract

Summary: We have incorporated both crossover and gene conversion hotspots into an existing coalescent-based program for simulating genetic variation data for a sample of chromosomes from a population. Availability: The source code for msHOT is available at , along with accompanying instructions. Contact:hellenth@stats.ox.ac.uk

Keywords

This publication has 8 references indexed in Scilit:

Calibrating a coalescent simulation of human genome sequence variation
Genome Research, 2005
A Fine-Scale Map of Recombination Rates and Hotspots Across the Human Genome
Science, 2005
Properties of a neutral allele model with intragenic recombination
Published by Elsevier ,2004
Intense and highly localized gene conversion activity in human meiotic crossover hot spots
Nature Genetics, 2004
Generating samples under a Wright–Fisher neutral model of genetic variation
Bioinformatics, 2002
Intensely punctate meiotic recombination in the class II region of the major histocompatibility complex
Nature Genetics, 2001
The Coalescent With Gene Conversion
Genetics, 2000
The double-strand-break repair model for recombination
Published by Elsevier ,1983