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Population selections #49
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This would then be like in PSMC. That is possible, and would give you effective population size estimates for the population from which this sample is from.
I don't know what you mean by "simulate". If you mean "analyse", then no, MSMC/MSMC2 cannot analyse three populations at the same time. But you could estimate separately:
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If the individual is homozygote (like rice and other self-pollinated plant), can it still be analyzed? I tried but it seems Powell minimization exceeding maximum iterations. |
No, you can't analyze a homozygous genome alone. You can of course treat a homozygous genome as a single haplotype and combine it with other such genomes to create something like a pseudo-diploid to estimate coalescence rates between them. |
Thank you for your patient, it helps me. |
Hi, I'm doing some population demographical analysis among three populations, and I have two questions I'd like to ask for help.
Looking forward to your reply! Thanks!
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