Search results for "phylogenetics"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
62	Elizabeth S. Allman, John A. Rhodes	The Identifiability of Covarion Models in Phylogenetics.	IEEE ACM Trans. Comput. Biol. Bioinform.	2009	DBLP DOI BibTeX RDF	Markov processes on trees, statistical consistency, phylogenetics
57	Michael Till, Bing Bing Zhou, Albert Y. Zomaya, Lars S. Jermiin	Phylogenetic Analysis Using Maxmimum Likelihood Methods in Homogenous Parallel Environments.	PDCAT	2004	DBLP DOI BibTeX RDF	ASA, parallel, SPMD, phylogenetics, super computing
52	Zhanshan (Sam) Ma, Axel W. Krings	Survival Analysis Modeling of Phylogenetic and Coalescent Trees.	BMEI (1)	2008	DBLP DOI BibTeX RDF
40	Dan Gusfield	The Multi-State Perfect Phylogeny Problem with Missing and Removable Data: Solutions via Integer-Programming and Chordal Graph Theory.	RECOMB	2009	DBLP DOI BibTeX RDF	graph triangulation, integer programming, computational biology, chordal graphs, phylogenetics, perfect phylogeny
40	Sandro Pirkwieser, Günther R. Raidl	Finding consensus trees by evolutionary, variable neighborhood search, and hybrid algorithms.	GECCO	2008	DBLP DOI BibTeX RDF	consensus tree problem, memetic algorithm, variable neighborhood search, hybrid methods, phylogenetics
40	Vincent Berry, François Nicolas	Improved Parameterized Complexity of the Maximum Agreement Subtree and Maximum Compatible Tree Problems.	IEEE ACM Trans. Comput. Biol. Bioinform.	2006	DBLP DOI BibTeX RDF	algorithms, pattern matching, trees, consensus, compatibility, fixed-parameter tractability, Phylogenetics
40	David Bryant, Vincent Moulton	NeighborNet: An Agglomerative Method for the Construction of Planar Phylogenetic Networks.	WABI	2002	DBLP DOI BibTeX RDF	SplitsTree, Networks, Hybridization, Phylogenetics, Neighbor-Joining
40	Craig A. Stewart, David Hart, Donald K. Berry, Gary J. Olsen, Eric A. Wernert, William Fischer 0002	Parallel implementation and performance of fastDNAml: a program for maximum likelihood phylogenetic inference.	SC	2001	DBLP DOI BibTeX RDF	scalability, bioinformatics, maximum likelihood, parallel applications, phylogenetics
40	David R. B. Stockwell, Jason T. L. Wang	Biomonitoring, Phylogenetics and Anomaly Aggregation Systems.	ISI	2005	DBLP DOI BibTeX RDF
34	Yong-Hyuk Kim, Seung-Kyu Lee, Byung Ro Moon	Optimizing the Order of Taxon Addition in Phylogenetic Tree Construction Using Genetic Algorithm.	GECCO	2003	DBLP DOI BibTeX RDF
22	Mukul S. Bansal, Oliver Eulenstein, André Wehe	The Gene-Duplication Problem: Near-Linear Time Algorithms for NNI-Based Local Searches.	IEEE ACM Trans. Comput. Biol. Bioinform.	2009	DBLP DOI BibTeX RDF	Computational phylogenetics, {tt NNI}, local search, gene-duplication, supertrees
22	David Bryant, Mike A. Steel	Computing the Distribution of a Tree Metric.	IEEE ACM Trans. Comput. Biol. Bioinform.	2009	DBLP DOI BibTeX RDF	discrete mathematics applications, Robinson-Foulds distance, Poisson approximation, trees, Biology and genetics, phylogenetics, normalization constant
22	Yasin Bakis, Osman Ugur Sezerman, M. Tekin Babaç, Cem Meydan	Optimization of morphological data in numerical taxonomy analysis using genetic algorithms feature selection method.	GECCO (Companion)	2009	DBLP DOI BibTeX RDF	morphological data, genetic algorithms, optimization, phylogenetics, biological data mining
22	Mukul S. Bansal, Oliver Eulenstein	An Omega(n^2/ log n) Speed-Up of TBR Heuristics for the Gene-Duplication Problem.	IEEE ACM Trans. Comput. Biol. Bioinform.	2008	DBLP DOI BibTeX RDF	Algorithms, Computational Biology, Phylogenetics, Gene Duplication, Supertrees
22	Ravi Vijaya Satya, Amar Mukherjee	The Undirected Incomplete Perfect Phylogeny Problem.	IEEE ACM Trans. Comput. Biol. Bioinform.	2008	DBLP DOI BibTeX RDF	Incomplete Perfect Phylogeny, Phylogenetics, Haplotype Inference, Perfect Phylogeny
22	Philippe Gambette, Daniel H. Huson	Improved Layout of Phylogenetic Networks.	IEEE ACM Trans. Comput. Biol. Bioinform.	2008	DBLP DOI BibTeX RDF	algorithms, graph drawing, phylogenetics, phylogenetic networks
22	Elchanan Mossel	Distorted Metrics on Trees and Phylogenetic Forests.	IEEE ACM Trans. Comput. Biol. Bioinform.	2007	DBLP DOI BibTeX RDF	CFN, Jukes-Cantor, metric, tree, distortion, Phylogenetics, forest
22	Jonathan D. Marra, Katherine G. Herbert, Jason T. L. Wang	A study of phylogenetic tools for genomic nomenclature data cleaning.	ITiCSE	2007	DBLP DOI BibTeX RDF	genomic nomenclature, data cleaning, phylogenetics
22	Róbert Busa-Fekete, András Kocsor, Csaba Bagyinka	A Multi-Stack Based Phylogenetic Tree Building Method.	ISBRA	2007	DBLP DOI BibTeX RDF	tree estimation, Multi-Stack, tree-joining operator, Phylogenetics
22	Warren A. Hunt Jr., Serita M. Nelesen	Phylogenetic trees in ACL2.	ACL2	2006	DBLP DOI BibTeX RDF	ACL2, phylogenetics
22	Constantinos Daskalakis, Elchanan Mossel, Sébastien Roch	Optimal phylogenetic reconstruction.	STOC	2006	DBLP DOI BibTeX RDF	CFN model, Jukes Cantor, reconstruction problem, phase transitions, phylogenetics, Ising model
22	Jonathan H. Badger, Paul E. Kearney	Picking fruit from the tree of life: comments on taxonomic sampling and quartet methods.	SAC	2001	DBLP DOI BibTeX RDF	quarter methods, taxonomic sampling, phylogenetics
22	Alina F. Leuchtenberger, Arndt von Haeseler	Learning From an Artificial Neural Network in Phylogenetics.	IEEE ACM Trans. Comput. Biol. Bioinform.	2024	DBLP DOI BibTeX RDF
22	Joey McCollum, Robert Turnbull	Using Bayesian phylogenetics to infer manuscript transmission history.	Digit. Scholarsh. Humanit.	2024	DBLP DOI BibTeX RDF
22	Sanket Wagle, Alexey Markin, Pawel Górecki 0001, Tavis K. Anderson, Oliver Eulenstein	Asymmetric Cluster-Based Measures for Comparative Phylogenetics.	J. Comput. Biol.	2024	DBLP DOI BibTeX RDF
22	Yoav Dvir, Shelly Brezner, Sagi Snir	Gene-Adjacency-Based Phylogenetics Under a Stochastic Gain-Loss Model.	RECOMB-CG	2024	DBLP DOI BibTeX RDF
22	Reinout Corts, Nikolaos Alachiotis 0001	A Survey of Processing Systems for Phylogenetics and Population Genetics.	ACM Trans. Reconfigurable Technol. Syst.	2023	DBLP DOI BibTeX RDF
22	Nhan Ly-Trong, Giuseppe M. J. Barca, Bui Quang Minh	AliSim-HPC: parallel sequence simulator for phylogenetics.	Bioinform.	2023	DBLP DOI BibTeX RDF
22	Guy Katriel, Udi Mahanaymi, Christoph Koutschan, Doron Zeilberger, Mike Steel, Sagi Snir	Using Generating Functions to Prove Additivity of Gene-Neighborhood Based Phylogenetics - Extended Abstract.	ISBRA	2023	DBLP DOI BibTeX RDF
22	Ghazaleh Parvini, Katherine Braught, David Fernández-Baca	Checking Phylogenetics Decisiveness in Theory and in Practice.	IEEE ACM Trans. Comput. Biol. Bioinform.	2022	DBLP DOI BibTeX RDF
22	Cheng Ye, Bryan Thornlow, Angie S. Hinrichs, Alexander Kramer, Cade Mirchandani, Devika Torvi, Robert Lanfear, Russell Corbett-Detig, Yatish Turakhia	matOptimize: a parallel tree optimization method enables online phylogenetics for SARS-CoV-2.	Bioinform.	2022	DBLP DOI BibTeX RDF
22	Simone Marini, Carla Mavian, Alberto Riva, Mattia Prosperi, Marco Salemi, Brittany Rife Magalis	Optimizing viral genome subsampling by genetic diversity and temporal distribution (TARDiS) for phylogenetics.	Bioinform.	2022	DBLP DOI BibTeX RDF
22	Steven Kelk, Simone Linz, Ruben Meuwese	Deep kernelization for the Tree Bisection and Reconnnect (TBR) distance in phylogenetics.	CoRR	2022	DBLP DOI BibTeX RDF
22	Zuher Jahshan, Leonid Yavits	CoViT: Real-time phylogenetics for the SARS-CoV-2 pandemic using Vision Transformers.	CoRR	2022	DBLP DOI BibTeX RDF
22	Sergio Santander-Jiménez, Miguel A. Vega-Rodríguez, Leonel Sousa	Exploiting multi-level parallel metaheuristics and heterogeneous computing to boost phylogenetics.	Future Gener. Comput. Syst.	2022	DBLP DOI BibTeX RDF
22	Mahmoud Kandeel, Wael El-Deeb	Omicron variant receptor-binding domain phylogenetics and molecular dynamics.	Comput. Biol. Medicine	2022	DBLP DOI BibTeX RDF
22	Alvin Chon, Pawel Górecki 0001, Oliver Eulenstein, Xiaoqiu Huang 0001, Ali Jannesari	Scalable and Extensible Robinson-Foulds for Comparative Phylogenetics.	IPDPS Workshops	2022	DBLP DOI BibTeX RDF
22	Yatish Turakhia	HiCOMB 2022 Invited Speaker: Pandemic-scale Phylogenetics.	IPDPS Workshops	2022	DBLP DOI BibTeX RDF
22	Nikolaos Alachiotis 0001, Andreas Brokalakis, Vasilis Amourgianos, Sotiris Ioannidis, Pavlos Malakonakis, Tasos Bokalidis	Accelerating Phylogenetics Using FPGAs in the Cloud.	IEEE Micro	2021	DBLP DOI BibTeX RDF
22	Remco R. Bouckaert, Mareike Fischer 0001, Kristina Wicke	Combinatorial perspectives on Dollo-k characters in phylogenetics.	Adv. Appl. Math.	2021	DBLP DOI BibTeX RDF
22	Kevin Shu, Andrew Ortegaray, Robert C. Berwick, Matilde Marcolli	Phylogenetics of Indo-European Language Families via an Algebro-Geometric Analysis of Their Syntactic Structures.	Math. Comput. Sci.	2021	DBLP DOI BibTeX RDF
22	Benjamin Hollering, Seth Sullivant	Identifiability in phylogenetics using algebraic matroids.	J. Symb. Comput.	2021	DBLP DOI BibTeX RDF
22	Diptesh Kanojia	Investigations into Distributional Semantics for Cognate Detection and Phylogenetics.		2021	DOI RDF
22	Martin Frohn	Models and methods for computational phylogenetics under minimum evolution.		2021	RDF
22	Anastasios Stefanou	Tree decomposition of Reeb graphs, parametrized complexity, and applications to phylogenetics.	J. Appl. Comput. Topol.	2020	DBLP DOI BibTeX RDF
22	Kristina Wicke, Mareike Fischer 0001	Combinatorial views on persistent characters in phylogenetics.	Adv. Appl. Math.	2020	DBLP DOI BibTeX RDF
22	Daniel Irving Bernstein	L-Infinity Optimization to Bergman Fans of Matroids with an Application to Phylogenetics.	SIAM J. Discret. Math.	2020	DBLP DOI BibTeX RDF
22	Max E. Schön, Laura Eme, Thijs J. G. Ettema	PhyloMagnet: fast and accurate screening of short-read meta-omics data using gene-centric phylogenetics.	Bioinform.	2020	DBLP DOI BibTeX RDF
22	Mingming Ren, Xiaomin Huang, Zhuofeng Wu 0002, Rebecca J. Stones, Xiaoguang Liu 0001, Gang Wang 0001	CuCodeML: GPU-Accelerated CodeML for the Branch-Site Model in Phylogenetics.	ISPA/BDCloud/SocialCom/SustainCom	2020	DBLP DOI BibTeX RDF
22	Michael A. Charleston	Molecular Phylogenetics.	Encyclopedia of Bioinformatics and Computational Biology (2)	2019	DBLP DOI BibTeX RDF
22	Magnus Bordewich, Britta Dorn, Simone Linz, Rolf Niedermeier	Algorithms and Complexity in Phylogenetics (Dagstuhl Seminar 19443).	Dagstuhl Reports	2019	DBLP DOI BibTeX RDF
22	Lev Michael, Natalia Chousou-Polydouri	Computational phylogenetics and the classification of South American languages.	Lang. Linguistics Compass	2019	DBLP DOI BibTeX RDF
22	Emmanuel Paradis, Klaus Schliep	ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R.	Bioinform.	2019	DBLP DOI BibTeX RDF
22	Frederick A. Matsen IV, Sara C. Billey, Arnold Kas, Matjaz Konvalinka	Tanglegrams: A Reduction Tool for Mathematical Phylogenetics.	IEEE ACM Trans. Comput. Biol. Bioinform.	2018	DBLP DOI BibTeX RDF
22	Stephen D. Shank, Steven Weaver, Sergei L. Kosakovsky Pond	phylotree.js - a JavaScript library for application development and interactive data visualization in phylogenetics.	BMC Bioinform.	2018	DBLP DOI BibTeX RDF
22	Nancy Retzlaff, Peter F. Stadler	Phylogenetics beyond biology.	Theory Biosci.	2018	DBLP DOI BibTeX RDF
22	Stilianos Louca, Michael Doebeli	Efficient comparative phylogenetics on large trees.	Bioinform.	2018	DBLP DOI BibTeX RDF
22	Taraka Rama	Three tree priors and five datasets: A study of the effect of tree priors in Indo-European phylogenetics.	CoRR	2018	DBLP BibTeX RDF
22	Guillaume E. Scholz	New algorithms and mathematical tools for phylogenetics beyond trees.		2018	RDF
22	Guy Baele, Philippe Lemey, Andrew Rambaut, Marc A. Suchard	Adaptive MCMC in Bayesian phylogenetics: an application to analyzing partitioned data in BEAST.	Bioinform.	2017	DBLP DOI BibTeX RDF
22	Kevin Shu, Andrew Ortegaray, Robert C. Berwick, Matilde Marcolli	Phylogenetics of Indo-European Language families via an Algebro-Geometric Analysis of their Syntactic Structures.	CoRR	2017	DBLP BibTeX RDF
22	Daniel L. Ayres, Michael P. Cummings	Heterogeneous Hardware Support in BEAGLE, a High-Performance Computing Library for Statistical Phylogenetics.	ICPP Workshops	2017	DBLP DOI BibTeX RDF
22	Max H. Garzon, Sambriddhi Mainali	Towards a Universal Genomic Positioning System: Phylogenetics and Species IDentification.	IWBBIO (2)	2017	DBLP DOI BibTeX RDF
22	Jun Zhou, Yu Lin 0001, Vaibhav Rajan, William Hoskins, Bing Feng, Jijun Tang	Analysis of gene copy number changes in tumor phylogenetics.	Algorithms Mol. Biol.	2016	DBLP DOI BibTeX RDF
22	Martin Ryberg	Phylommand - a command line software package for phylogenetics.	F1000Research	2016	DBLP DOI BibTeX RDF
22	John J. Andersen, Bradley J. Nelson, Jeremy M. Brown	EmpPrior: using outside empirical data to inform branch-length priors for Bayesian phylogenetics.	BMC Bioinform.	2016	DBLP DOI BibTeX RDF
22	Peter Robinson 0003	Four rules for the application of phylogenetics in the analysis of textual traditions.	Digit. Scholarsh. Humanit.	2016	DBLP DOI BibTeX RDF
22	Victor Hanson-Smith, Alexander Johnson	PhyloBot: A Web Portal for Automated Phylogenetics, Ancestral Sequence Reconstruction, and Exploration of Mutational Trajectories.	PLoS Comput. Biol.	2016	DBLP DOI BibTeX RDF
22	Cayla D. McBee, Tim Penttila	Remarks on Hadamard conjugation and combinatorial phylogenetics.	Australas. J Comb.	2016	DBLP BibTeX RDF
22	Diane Oyen, Blake Anderson, Christine M. Anderson-Cook	Bayesian Networks with Prior Knowledge for Malware Phylogenetics.	AAAI Workshop: Artificial Intelligence for Cyber Security	2016	DBLP BibTeX RDF
22	Salim Akhter Chowdhury, E. Michael Gertz, Darawalee Wangsa, Kerstin Heselmeyer-Haddad, Thomas Ried, Alejandro A. Schäffer, Russell Schwartz	Inferring models of multiscale copy number evolution for single-tumor phylogenetics.	Bioinform.	2015	DBLP DOI BibTeX RDF
22	William D. Pearse, Marc W. Cadotte, Jeannine Cavender-Bares, Anthony R. Ives, Caroline M. Tucker, Steve C. Walker, Matthew R. Helmus	pez: phylogenetics for the environmental sciences.	Bioinform.	2015	DBLP DOI BibTeX RDF
22	Matthew Hall, Mark E. J. Woolhouse, Andrew Rambaut	Epidemic Reconstruction in a Phylogenetics Framework: Transmission Trees as Partitions of the Node Set.	PLoS Comput. Biol.	2015	DBLP DOI BibTeX RDF
22	Sandra A. Meid	Split Analysis Methods and Parametric Bootstrapping in Molecular Phylogenetics: Taking a closer look at model adequacy.		2015	RDF
22	Bernhard Misof, Karen Meusemann, Björn Marcus von Reumont, Patrick Kück, Sonja J. Prohaska, Peter F. Stadler	A priori assessment of data quality in molecular phylogenetics.	Algorithms Mol. Biol.	2014	DBLP DOI BibTeX RDF
22	Bernhard Haubold	Alignment-free phylogenetics and population genetics.	Briefings Bioinform.	2014	DBLP DOI BibTeX RDF
22	Luke Maurits, Thomas L. Griffiths 0001	Tracing the roots of syntax with Bayesian phylogenetics.	Proc. Natl. Acad. Sci. USA	2014	DBLP DOI BibTeX RDF
22	John A. Capra, Dennis Kostka	Modeling DNA methylation dynamics with approaches from phylogenetics.	Bioinform.	2014	DBLP DOI BibTeX RDF
22	Neil C. A. Moore, Patrick Prosser	The Ultrametric Constraint and its Application to Phylogenetics.	CoRR	2014	DBLP BibTeX RDF
22	Salim Akhter Chowdhury, Stanley E. Shackney, Kerstin Heselmeyer-Haddad, Thomas Ried, Alejandro A. Schäffer, Russell Schwartz	Algorithms to Model Single Gene, Single Chromosome, and Whole Genome Copy Number Changes Jointly in Tumor Phylogenetics.	PLoS Comput. Biol.	2014	DBLP DOI BibTeX RDF
22	Blake Anderson, Terran Lane, Curtis Hash	Malware Phylogenetics Based on the Multiview Graphical Lasso.	IDA	2014	DBLP DOI BibTeX RDF
22	Mukul S. Bansal, Oliver Eulenstein	Algorithms for Genome-Scale Phylogenetics Using Gene Tree Parsimony.	IEEE ACM Trans. Comput. Biol. Bioinform.	2013	DBLP DOI BibTeX RDF
22	Mehmood Alam Khan, Isaac Elias, Erik Sjölund, Kristina Nylander, Roman Valls Guimera, Richard Schobesberger, Peter Schmitzberger, Jens Lagergren, Lars Arvestad	fastphylo: Fast tools for phylogenetics.	BMC Bioinform.	2013	DBLP DOI BibTeX RDF
22	Sergio Santander-Jiménez, Miguel A. Vega-Rodríguez	Parallelizing a multiobjective swarm intelligence approach to phylogenetics using hybrid MPI/OpenMP schemes.	EuroMPI	2013	DBLP DOI BibTeX RDF
22	Mark A. Miller, Terri Schwartz, Wayne Pfeiffer	Embedding CIPRES science gateway capabilities in phylogenetics software environments.	XSEDE	2013	DBLP DOI BibTeX RDF
22	Ana Brândusa Pavel, Cristian Ioan Vasile	PyElph - a software tool for gel images analysis and phylogenetics.	BMC Bioinform.	2012	DBLP DOI BibTeX RDF
22	A. P. Jason de Koning, Wanjun Gu, Todd A. Castoe, David D. Pollock	Phylogenetics, likelihood, evolution and complexity.	Bioinform.	2012	DBLP DOI BibTeX RDF
22	Andrei-Alin Popescu, Katharina T. Huber, Emmanuel Paradis	ape 3.0: New tools for distance-based phylogenetics and evolutionary analysis in R.	Bioinform.	2012	DBLP DOI BibTeX RDF
22	David Bryant, Mike A. Steel	'Bureaucratic' set systems, and their role in phylogenetics.	Appl. Math. Lett.	2012	DBLP DOI BibTeX RDF
22	Jiajie Zhang, Alexandros Stamatakis	The Multi-Processor Scheduling Problem in Phylogenetics.	IPDPS Workshops	2012	DBLP DOI BibTeX RDF
22	Mark A. Miller, Wayne Pfeiffer, Terri Schwartz	The CIPRES science gateway: enabling high-impact science for phylogenetics researchers with limited resources.	XSEDE	2012	DBLP DOI BibTeX RDF
22	Bertrand Schneider	Designing tabletop activities for inquiry-based learning: lessons from phylogenetics, neuroscience and logistics.	ITS	2012	DBLP DOI BibTeX RDF
22	Zhen Meng, Jianhui Li, Yunchun Zhou, Wei Cao, Xiao Xiao, Jing Zhao, Hui Dong, Shouzhou Zhang	GSQCT: A solution to screening gene sequences for phylogenetics analysis.	FSKD	2012	DBLP DOI BibTeX RDF
22	Aaron Douglas Kleinman	Combinatorial Phylogenetics of Reconstruction Algorithms.		2012	RDF
22	Patrick Kück	Homology Assessment in Molecular Phylogenetics : Evaluation, Improvement, and Influence of Data Quality on Tree Reconstruction		2012	RDF
22	Alexandros Stamatakis	Phylogenetics.	Encyclopedia of Parallel Computing	2011	DBLP DOI BibTeX RDF
22	Tamir Tuller, Elchanan Mossel	Co-evolution Is Incompatible with the Markov Assumption in Phylogenetics.	IEEE ACM Trans. Comput. Biol. Bioinform.	2011	DBLP DOI BibTeX RDF
22	Alexandros Stamatakis, Fernando Izquierdo-Carrasco	Result verification, code verification and computation of support values in phylogenetics.	Briefings Bioinform.	2011	DBLP DOI BibTeX RDF
22	Bongsoo Park, Jongsun Park 0002, Kyeong-Chae Cheong, Jaeyoung Choi, Kyongyong Jung, Donghan Kim, Yong-Hwan Lee, Todd J. Ward, Kerry O'Donnell, David M. Geiser, Seogchan Kang	Cyber infrastructure for Fusarium: three integrated platforms supporting strain identification, phylogenetics, comparative genomics and knowledge sharing.	Nucleic Acids Res.	2011	DBLP DOI BibTeX RDF
22	Rubén Sánchez, François Serra, Joaquín Tárraga, Ignacio Medina, José Carbonell, Luis Pulido, Alejandro de María, Salvador Capella-Gutiérrez, Jaime Huerta-Cepas, Toni Gabaldón, Joaquín Dopazo, Hernán Dopazo	Phylemon 2.0: a suite of web-tools for molecular evolution, phylogenetics, phylogenomics and hypotheses testing.	Nucleic Acids Res.	2011	DBLP DOI BibTeX RDF