Question: Making random SNP with similar allele frequency and recombination rate to my SNP list
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gravatar for seta
6 months ago by
seta1.2k
Sweden
seta1.2k wrote:

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

ADD COMMENTlink modified 6 months ago • written 6 months ago by seta1.2k

Depending on the data you have, you might try simcoal2 or genomepop.

ADD REPLYlink written 5 months ago by Fabio Marroni2.4k
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