Parameter setting in BEASTv2.6.7

Question

[wes]

I would like to use concatenated and aligned (MAFFT) amino acids sequences of protein-coding genes (mitogenome) to construct phylogenetic tree using BEASTv2.6.7.

First, PartitionFinder2 will run to determine the best model for the concatenated and aligned amino acid sequences of protein-coding genes before proceed to BI analysis using BEAST.

Is there any tutorial or paper to refer to for parameter setting in BEASTv2.6.7? since my input is amino acids sequences of protein-coding genes (mitogenome) and the data type in the tutorial is nucleotide.

Answer 1

[Mensur Dlakic]

Same advice as before: IQ-TREE's ModelFinder can also be used to find best partitions.

• http://www.iqtree.org/doc/Advanced-Tutorial
• http://www.iqtree.org/workshop/anu2018