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seidels / tidetree

A Bayesian phylogenetic framework to estimate single-cell trees and population dynamic parameters from genetic lineage tracing data
GNU General Public License v3.0
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Running TiDeTree #5

Open gillichu opened 1 year ago

gillichu commented 1 year ago

Following up on the previous issue, we are also interested in running TiDeTree, and we are having some difficulty. Would the authors be able to provide additional details on how to integrate the provided code with BEAST, and provide a small example we could run on?

seidels commented 1 year ago

Dear @gillichu, thank you for your interest in TiDeTree!! I have added a command to run the example XML to the README file. Using the tidetree.jar you can also run analyses using bdksy or bdmmprime by directly editing the XML. Let me know if you urgently need another BEAST 2 package for your analysis.

I'll keep this issue open until I have a working BEAUTI integration.