PhyloAcc-GT: A Bayesian Method for Inferring Patterns of Substitution Rate Shifts on Targeted Lineages Accounting for Gene Tree Discordance.

"data availability phyloacc and phyloacc-gt are open source software under the gnu general public license (v3 0) and are freely available at https://phyloacc github io/ .; all input and output files for the analysis of the simulated data ratite data and mammal data as well as the scripts used to generate the figures in this manuscript are also available at https://github com/phyloacc/yan-etal-2022 with the exception of nucleotide alignments."

"data availability phyloacc and phyloacc-gt are open source software under the gnu general public license (v3 0) and are freely available at https://phyloacc github io/ .; all input and output files for the analysis of the simulated data ratite data and mammal data as well as the scripts used to generate the figures in this manuscript are also available at https://github com/phyloacc/yan-etal-2022 with the exception of nucleotide alignments."

"This work was supported by NIH R01 HG011485-01. H.Y. and J.S.L. were also supported in part by NSF DMS-2015411. We would like to thank Taehee Lee, Patrick Gemmell, Liang Liu, and Subir Shakya for discussion and Nathan Weeks for computational advice. We also thank two anonymous reviewers for their helpful suggestions during the review process, as well as the editor at MBE. The computations in this paper were run on the FASRC Cannon cluster supported by the FAS Division of Science Research Computing Group at Harvard University."