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BenoitMorel / AleRax

Gene tree - species tree reconciliation from gene tree distributions
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Not an issue, a general discussion. #7

Closed karthickbrlab closed 4 months ago

karthickbrlab commented 4 months ago

HI, I have generated individual gene trees for 10 genes among 12 species using ParGenes. Now how can i use all these tree to infer single species tree using AleRax, which depicts the divergence among the species.

which parameter i should invoke?

Thank you.

BenoitMorel commented 4 months ago

Hello, If you have generated one tree per gene family, you don't necessarily need to use AleRax (which takes as input distributions of gene trees instead of individual maximum likelihood gene trees). I would rather use SpeciesRax or Astral-Pro if you have gene duplications/losses/transfers. Best, Benoit

Le ven. 21 juin 2024 à 06:33, kbsivakumar @.***> a écrit :

HI, I have generated individual gene trees for 10 genes among 12 species using pargenes. Now how can i use all these tree to infer single species tree which depicts the divergence among the species..

which parameter i should invoke?

Thank you.

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