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IEEE/ACM Transactions on Computational Biology and Bioinformatics|October 5, 2017
Species Tree Estimation Using ASTRAL: How Many Genes Are Enough?Shubhanshu Shekhar, Sebastien Roch, Siavash MirarabGenome Biology|February 21, 2026
krepp: a k-mer-based maximum pseudo-likelihood method for estimating read distances and genome-wide phylogenetic placementAli Osman Berk Şapcı, Siavash MirarabSystematic Biology|May 22, 2026
Coalescent-based branch length estimation improves dating of species treesYasamin Tabatabaee, Santiago Claramunt, Siavash MirarabBMC Genomics|January 10, 2015
BBCA: Improving the scalability of *BEAST using random binningThéo Zimmermann, Siavash Mirarab, Tandy WarnowAlgorithms for Molecular Biology : AMB|January 28, 2012
MRL and SuperFine+MRL: new supertree methodsNam Nguyen, Siavash Mirarab, Tandy WarnowBioinformatics (Oxford, England)|September 13, 2019
TADA: phylogenetic augmentation of microbiome samples enhances phenotype classificationErfan Sayyari, Ban Kawas, Siavash MirarabBioinformatics (Oxford, England)|March 24, 2019
ASTRAL-MP: scaling ASTRAL to very large datasets using randomization and parallelizationJohn Yin, Chao Zhang, Siavash MirarabBiorxiv : the Preprint Server for Biology|June 10, 2024
Accurate, scalable, and fully automated inference of species trees from raw genome assemblies using ROADIESAnshu Gupta, Siavash Mirarab, Yatish TurakhiaProceedings of the National Academy of Sciences of the United States of America|May 2, 2025
Accurate, scalable, and fully automated inference of species trees from raw genome assemblies using ROADIESAnshu Gupta, Siavash Mirarab, Yatish TurakhiaMolecular Phylogenetics and Evolution|November 6, 2018
Multi-allele species reconstruction using ASTRALMaryam Rabiee, Erfan Sayyari, Siavash MirarabPageof 12