BAli-Phy: simultaneous Bayesian inference of alignment and phylogeny. - Marc A. Suchard; Benjamin D. Redelings (Bioinform., 2006)

Improving phylogenetic analyses by incorporating additional information from genetic sequence databases. - Li-Jung Liang; Robert E. Weiss; Benjamin D. Redelings; Marc A. Suchard (Bioinform., 2009)

Bali-Phy version 3: model-based co-estimation of alignment and phylogeny. - Benjamin D. Redelings (Bioinform., 2021)

Erratum to: BAli-Phy version 3: model-based co-estimation of alignment and phylogeny. - Benjamin D. Redelings (Bioinform., 2021)