NovelTree is a highly parallelized and computationally efficient phylogenomic workflow that infers gene families, gene family trees, species trees, and gene family evolutionary history.
Capable of efficiently inferring both reconciled gene family trees and a shared species tree. Depending on it's implementation of parallelization, may prove a challenge (I.e. if individual gene tree inference tasks need to communicate with a single, shared species tree inference task with MPI).
Description of feature
We should look into implementing the recently released AleRax into the workflow, potentially as an alternative to generax/speciesrax:
https://www.biorxiv.org/content/10.1101/2023.10.06.561091v1
Capable of efficiently inferring both reconciled gene family trees and a shared species tree. Depending on it's implementation of parallelization, may prove a challenge (I.e. if individual gene tree inference tasks need to communicate with a single, shared species tree inference task with MPI).