Question: Forward simulation with SNP data
0
gravatar for Fotis T
4.6 years ago by
Fotis T30
Democritus University of Thrace, Greece
Fotis T30 wrote:

Hi,

I want to simulate migration events, mutations and recombinations on real snp data, by forward simulation. I am not aware of a program that does this yet. I only know of programs that do this on random data.

So, what I want the program to do is take an input file (plink format or else) and advance it forward in time by a variety of theoretical models.

Does anybody know of a program like that?

Thank you

ADD COMMENTlink modified 4.2 years ago by BioCh'ti0 • written 4.6 years ago by Fotis T30
2
gravatar for onuralp
4.6 years ago by
onuralp190
Turkey
onuralp190 wrote:

This is an interesting question. I have recently come across the following paper, which I think might be a good read to begin with: Forward-time simulation of realistic samples for genome-wide association studies 

Please keep us posted if you find something. 

 

ADD COMMENTlink written 4.6 years ago by onuralp190
0
gravatar for BioCh'ti
4.2 years ago by
BioCh'ti0
European Union - France
BioCh'ti0 wrote:

Hi, I'm also interested in simulationg SNP matrix data to test the effect of parameters such as the size of the population, the number of SNP in the context of cross-validation for Genomic Selection. Did you get further with simulating such kind of data? THX

ADD COMMENTlink written 4.2 years ago by BioCh'ti0
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