Help parameterizing seqfile

[desmodus1984]

Hi,
I am interested in using ragout to scaffold a bat genome that I am sequencing.
To run it I need to align it with other genome assemblies for scaffolding.
I wanted to inquire about parameterizing the seqfile.
I need a phylogenetic tree, and I created one:

((HLmolMol,((HLmyoMyo,Myosep),HLpipKuh)),(HLrhiFer,HLrouAeg));

My question is how to determine or to estimate the branch lengths.

For example, there is a paper that created a tree with all the 21 families of bats, but there are only reference-based genome assemblies for six species from six families.
https://onlinelibrary.wiley.com/doi/10.1111/1749-4877.12772
A molecular phylogeny for all 21 families within Chiroptera (bats)

Could you help how to estimate the branch lengths.

In addition, I couldn't find any requirements, which I thought cactus had before; thus I only need the precompilled binaries to run cactus now?

Thanks;

[glennhickey]

Here's a new tool to compute trees and branch lengths. Give it a try:

https://github.com/TurakhiaLab/ROADIES