ASTRAL-II: coalescent-based species tree estimation with many hundreds of taxa and thousands of genes

por Mirarab, Siavash, Warnow, Tandy
Publicado en Bioinformatics (2015)

Fast Coalescent-Based Computation of Local Branch Support from Quartet Frequencies

por Sayyari, Erfan, Mirarab, Siavash
Publicado en Mol Biol Evol (2016)

Anchoring quartet-based phylogenetic distances and applications to species tree reconstruction

por Sayyari, Erfan, Mirarab, Siavash
Publicado en BMC Genomics (2016)

Testing for Polytomies in Phylogenetic Species Trees Using Quartet Frequencies

por Sayyari, Erfan, Mirarab, Siavash
Publicado en Genes (Basel) (2018)

A Two-State Model of Tree Evolution and Its Applications to Alu Retrotransposition

por Moshiri, Niema, Mirarab, Siavash
Publicado en Syst Biol (2018)

TreeShrink: fast and accurate detection of outlier long branches in collections of phylogenetic trees

por Mai, Uyen, Mirarab, Siavash
Publicado en BMC Genomics (2018)

Forcing external constraints on tree inference using ASTRAL

por Rabiee, Maryam, Mirarab, Siavash
Publicado en BMC Genomics (2020)

Phylogenetic double placement of mixed samples

por Balaban, Metin, Mirarab, Siavash
Publicado en Bioinformatics (2020)

Log Transformation Improves Dating of Phylogenies

por Mai, Uyen, Mirarab, Siavash
Publicado en Mol Biol Evol (2020)

MRL and SuperFine+MRL: new supertree methods

por Nguyen, Nam, Mirarab, Siavash, Warnow, Tandy
Publicado 2012

BBCA: Improving the scalability of *BEAST using random binning

por Zimmermann, Théo, Mirarab, Siavash, Warnow, Tandy
Publicado en BMC Genomics (2014)

Minimum variance rooting of phylogenetic trees and implications for species tree reconstruction

por Mai, Uyen, Sayyari, Erfan, Mirarab, Siavash
Publicado en PLoS One (2017)

TADA: phylogenetic augmentation of microbiome samples enhances phenotype classification

por Sayyari, Erfan, Kawas, Ban, Mirarab, Siavash
Publicado en Bioinformatics (2019)

APPLES: Scalable Distance-Based Phylogenetic Placement with or without Alignments

por Balaban, Metin, Sarmashghi, Shahab, Mirarab, Siavash
Publicado en Syst Biol (2020)

HIV Care Prioritization using Phylogenetic Branch Length

por Moshiri, Niema, Smith, Davey M., Mirarab, Siavash
Publicado en J Acquir Immune Defic Syndr (2021)

Phylogenomic species tree estimation in the presence of incomplete lineage sorting and horizontal gene transfer

por Davidson, Ruth, Vachaspati, Pranjal, Mirarab, Siavash, Warnow, Tandy
Publicado en BMC Genomics (2015)

ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees

por Zhang, Chao, Rabiee, Maryam, Sayyari, Erfan, Mirarab, Siavash
Publicado en BMC Bioinformatics (2018)

Weighted Statistical Binning: Enabling Statistically Consistent Genome-Scale Phylogenetic Analyses

por Bayzid, Md Shamsuzzoha, Mirarab, Siavash, Boussau, Bastien, Warnow, Tandy
Publicado en PLoS One (2015)

HIPPI: highly accurate protein family classification with ensembles of HMMs

por Nguyen, Nam-phuong, Nute, Michael, Mirarab, Siavash, Warnow, Tandy
Publicado en BMC Genomics (2016)

ASTRAL-Pro: Quartet-Based Species-Tree Inference despite Paralogy

por Zhang, Chao, Scornavacca, Celine, Molloy, Erin K, Mirarab, Siavash
Publicado en Mol Biol Evol (2020)