Software

Open software

1. MSCquartets: Analyzing Gene Tree Quartets under the Multi-species Coalescent. Joint with E. Allman, J. Mitchell, J.A. Rhodes.
   R package - CRAN download. 

R shiny app to explore the package functions:  https://hector-banos.shinyapps.io/MSCq/

2. MEOW: An extension of MAMMaL (Susko, 2022). MAMMaL is a program designed to create a list of estimated frequency classes, each containing relative frequency values of amino acid types, as described in Susko, Lincker, and Roger (2018). MEOW aims to expand upon the core functionality of MAMMaL by providing a wider range of options for processing sequence alignments. Joint with  A. Roger,  E. Susko,  R. Harada, K. Williamson.
   Available at GitHub.
   
   

3. GTRpmix: A tool implemented in IQ-TREE3 (Wong et al., 2026). GTRpmix model that allows maximum likelihood estimation of a common exchangeability matrix under any profile mixture model, as described in Banos et al. (2025). Joint with Thomas K F Wong , Justin Daneau , Edward Susko , Bui Quang Minh , Robert Lanfear , Matthew W Brown , Laura Eme , and Andrew J Roger.
   Available at IQ-TREE's website.

4. MSCsimtester: Testing Multispecies Coalescent Simulators using Summary Statistics. Joint with E. Allman and J.A.Rhodes.
   R package available at the CRAN download.