Making random SNP with similar allele frequency and recombination rate to my SNP list
Hi all,
For some tests, I would like to generate about 2000 random SNPs. As I found in some papers, the random SNP should have similar allele frequency and recombination rate to my SNP list. I have allele frequency of my SNP list, but no information about their recombination rate. Could you please help me out how I can generate such the random SNP list, 1000 times?
Thanks in advance
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Depending on the data you have, you might try simcoal2 or genomepop.