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heche-psb / wgd

wgd v2: a suite of tools to uncover and date ancient polyploidy and whole-genome duplication
https://wgdv2.readthedocs.io/en/latest/
GNU General Public License v3.0
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inference of Ks value from paranome #15

Closed manoharbisht1998 closed 6 months ago

manoharbisht1998 commented 8 months ago

Hi I have run the whole paranome ks distribution and i received the plot through "viz" parameter with elmm mixture model. But i am confused with different values associated with different lognormal optimization, as what would be the final Ks value from the plot. Kindly help.

PFA Ks_inference.pdf

heche-psb commented 8 months ago

Hi, for the ELMM analysis, it's better to rerun it multiply times until you get stable results because of the random initiation of parameters . It's suggested to compare the whole paranome Ks distribution to the anchor Ks distribution (and its associated GMM results) to reach some conclusions.