Links

PhyloAcc

Github organization / All code, data, and documentation relating to PhyloAcc is hosted here

Bioconda page / Information about the PhyloAcc bioconda package

Original paper (PhyloAcc-ST) / The original manuscript in which PhyloAcc was developed, with a results relating to flightlessness in birds and marine mammals

Discordance paper (Phyloacc-GT; pre-print) / The pre-print of the manuscript in which the gene tree model was developed

The evolution of flightless birds / An article in The Harvard Gazette covering research related to PhyloAcc

Other helpful software

PHAST / Software that can predict conserved elements and estimate a neutral model for PhyloAcc's input

IQ-TREE / Maximum likelihood phylogenetic inference that is used in the PhyloAcc pipeline when estimating branch lengths on a species tree

ASTRAL / Species tree inference method used in the PhyloAcc pipeline to estimate branch lengths in coalescent units

MP-EST / Species tree inference software used to estimate branch lengths in coalescent units

People

Zhirui Hu / One of the lead developers of PhyloAcc

Han Yan / One of the lead developers of PhyloAcc

Gregg Thomas / One of the lead developers of PhyloAcc

Patrick Gemmell / A postdoctoral researcher in the Edwards and Liu labs at Harvard University developing new models for PhyloAcc

Timothy Sackton / Director of the Harvard Bioinformatics group and developer of PhyloAcc

Edwards Lab / PhyloAcc is developed in Scott Edwards' lab at the Harvard University Museuem of Comparative Zoology

Jun Liu / PhyloAcc is developed in Jun Liu's group in the Department of Statistics at Harvard University

Harvard Informatics / PhyloAcc is developed in the Harvard Informatics group