1-20 of 111
Section: PHYLOGENETICS
Save search
Sort by
Journal Article

ASTRAL-Pro 2: ultrafast species tree reconstruction from multi-copy gene family trees

PDF
Chao Zhang and Siavash Mirarab
Bioinformatics, Volume 38, Issue 21, 1 November 2022, Pages 4949–4950, https://doi.org/10.1093/bioinformatics/btac620
Published: 12 September 2022
Journal Article

Mirage 2.0: fast and memory-efficient reconstruction of gene-content evolution considering heterogeneous evolutionary patterns among gene families

PDF
Tsukasa Fukunaga and Wataru Iwasaki
Bioinformatics, Volume 38, Issue 16, August 2022, Pages 4039–4041, https://doi.org/10.1093/bioinformatics/btac433
Published: 30 June 2022
Journal Article

PANPROVA: pangenomic prokaryotic evolution of full assemblies

PDF
Vincenzo Bonnici and Rosalba Giugno
Bioinformatics, Volume 38, Issue 9, March 2022, Pages 2631–2632, https://doi.org/10.1093/bioinformatics/btac158
Published: 15 March 2022
Journal Article

RAxML Grove: an empirical phylogenetic tree database

PDF
Dimitri Höhler and others
Bioinformatics, Volume 38, Issue 6, March 2022, Pages 1741–1742, https://doi.org/10.1093/bioinformatics/btab863
Published: 28 December 2021
Journal Article

RCandy: an R package for visualizing homologous recombinations in bacterial genomes

PDF
Chrispin Chaguza and others
Bioinformatics, Volume 38, Issue 5, March 2022, Pages 1450–1451, https://doi.org/10.1093/bioinformatics/btab814
Published: 02 December 2021
Journal Article

Optimizing viral genome subsampling by genetic diversity and temporal distribution (TARDiS) for phylogenetics

PDF
Simone Marini and others
Bioinformatics, Volume 38, Issue 3, February 2022, Pages 856–860, https://doi.org/10.1093/bioinformatics/btab725
Published: 21 October 2021
Journal Article

SANS serif: alignment-free, whole-genome-based phylogenetic reconstruction

PDF
Andreas Rempel and Roland Wittler
Bioinformatics, Volume 37, Issue 24, December 2021, Pages 4868–4870, https://doi.org/10.1093/bioinformatics/btab444
Published: 16 June 2021
Journal Article

BAli-Phy version 3: model-based co-estimation of alignment and phylogeny

PDF
Benjamin D Redelings
Bioinformatics, Volume 37, Issue 18, September 2021, Pages 3032–3034, https://doi.org/10.1093/bioinformatics/btab129
Published: 02 March 2021
Journal Article

PhyloWGA: chromosome-aware phylogenetic interrogation of whole genome alignments

PDF
Richard H Adams and others
Bioinformatics, Volume 37, Issue 13, July 2021, Pages 1923–1925, https://doi.org/10.1093/bioinformatics/btaa884
Published: 12 December 2020
Journal Article

eMPRess: a systematic cophylogeny reconciliation tool

PDF
Santi Santichaivekin and others
Bioinformatics, Volume 37, Issue 16, August 2021, Pages 2481–2482, https://doi.org/10.1093/bioinformatics/btaa978
Published: 20 November 2020
Journal Article

DoubleRecViz: a web-based tool for visualizing transcript–gene–species tree reconciliation

PDF
Esaie Kuitche and others
Bioinformatics, Volume 37, Issue 13, July 2021, Pages 1920–1922, https://doi.org/10.1093/bioinformatics/btaa882
Published: 14 October 2020
Journal Article

MSCquartets 1.0: quartet methods for species trees and networks under the multispecies coalescent model in R

PDF
John A Rhodes and others
Bioinformatics, Volume 37, Issue 12, June 2021, Pages 1766–1768, https://doi.org/10.1093/bioinformatics/btaa868
Published: 08 October 2020
Journal Article

UglyTrees: a browser-based multispecies coalescent tree visualizer

PDF
Jordan Douglas
Bioinformatics, Volume 37, Issue 2, January 2021, Pages 268–269, https://doi.org/10.1093/bioinformatics/btaa679
Published: 27 July 2020
Journal Article

Treerecs: an integrated phylogenetic tool, from sequences to reconciliations

PDF
Nicolas Comte and others
Bioinformatics, Volume 36, Issue 18, September 2020, Pages 4822–4824, https://doi.org/10.1093/bioinformatics/btaa615
Published: 16 July 2020
Journal Article

PRANC: ML species tree estimation from the ranked gene trees under coalescence

PDF
Anastasiia Kim and James H Degnan
Bioinformatics, Volume 36, Issue 18, September 2020, Pages 4819–4821, https://doi.org/10.1093/bioinformatics/btaa605
Published: 01 July 2020
Journal Article

Very Fast Tree: speeding up the estimation of phylogenies for large alignments through parallelization and vectorization strategies

PDF
César Piñeiro and others
Bioinformatics, Volume 36, Issue 17, September 2020, Pages 4658–4659, https://doi.org/10.1093/bioinformatics/btaa582
Published: 23 June 2020
Journal Article

Capybara: equivalence ClAss enumeration of coPhylogenY event-BAsed ReconciliAtions

PDF
Yishu Wang and others
Bioinformatics, Volume 36, Issue 14, July 2020, Pages 4197–4199, https://doi.org/10.1093/bioinformatics/btaa498
Published: 18 June 2020
Journal Article

ipcoal: an interactive Python package for simulating and analyzing genealogies and sequences on a species tree or network

PDF
Patrick F McKenzie and Deren A R Eaton
Bioinformatics, Volume 36, Issue 14, July 2020, Pages 4193–4196, https://doi.org/10.1093/bioinformatics/btaa486
Published: 12 May 2020
Journal Article

Genesis and Gappa: processing, analyzing and visualizing phylogenetic (placement) data

PDF
Lucas Czech and others
Bioinformatics, Volume 36, Issue 10, May 2020, Pages 3263–3265, https://doi.org/10.1093/bioinformatics/btaa070
Published: 04 February 2020
Journal Article

Simulating trees with millions of species

PDF
Stilianos Louca
Bioinformatics, Volume 36, Issue 9, May 2020, Pages 2907–2908, https://doi.org/10.1093/bioinformatics/btaa031
Published: 17 January 2020