2 papers
q-bio.QM2026
Learning Deep Phylogeny Through Epistasis-Aware Geometry
Jason Lamanna, Erfan Mowlaei, Xinghua Shi +2
Epistasis shapes protein evolution because the effect of a substitution depends on its sequence background. Site-independent substitution models can recover phylogeny accurately, b…
q-bio.PE2025
Treemble: A Graphical Tool to Generate Newick Strings from Phylogenetic Tree Images
John B. Allard, Sudhir Kumar
Phylogenetic trees are ubiquitous and central to biology, but most published trees are available only as visual diagrams and not in the machine-readable newick format. There are th…