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zkamvar / clonal-inference-simulations

Simulation scripts for simuPop
MIT License
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Admixture Analysis #2

Open zkamvar opened 8 years ago

zkamvar commented 8 years ago

There is the task of analyzing different levels of admixture in clonal populations, but a problem with this is the fact that admixture doesn't make sense without sex.

Perhaps a more interesting idea is to look at recent and ancient recombination for partially clonal populations:

time pop1  pop2   pop1  pop2   pop1  pop2
  |   |     |      |     |      |     |  
  |   |     |      |__ __|      |     |  
  |   |     |         |         |     |  
  |   |     |   vs    |     vs  |     |  
  |   |     |       __|__       |     |  
  |   |__ __|      |     |      |     |  
  |      |         |     |      |     |  
  |      |         |     |      |__ __|  
  |    __|__       |     |       __|__   
  V   |     |      |     |      |     |
grunwald commented 8 years ago

I suggest just mixing in different ratios populations of 2,3, 4 etc. clones and seeing what the index does. Chose many different pairwise combos to see if at times they look sexual.

zkamvar commented 8 years ago

mixing in different ratios populations of 2,3, 4 etc. clones

I'm not exactly sure what you mean here. Do you mean sampling from 2, 3, 4, ... clonal populations in different ratios?

grunwald commented 8 years ago

Yes, mixing a 2 clonal populations, or admixing 3 or 4 ...

zkamvar commented 8 years ago

mixing a 2 clonal populations, or admixing 3 or 4 ...

To clarify, since there is different terminology (mixing vs. admixing):

Do you mean to suggest three different scenarios of sampling from 2, 3, and 4 clonal populations?

grunwald commented 8 years ago

I mean literally mixing 2, 3, 4 of whatever we want populations that are clonal in different proportions. They are still clonal and do not share alleles (e.g. interbreed).