Group: FAB-lab - with tag algorithms [52 articles] Export

Recent papers posted by members of the FAB-lab group with tag algorithms

	PhyloExplorer: a web server to validate, explore and query phylogenetic trees [My Copy] BMC Evolutionary Biology, Vol. 9 (18 May 2009), 108. by Vincent, Vincent Berry posted to algorithms biodiversity classification data-mining databases graph graphics methods phyloinformatics programming software taxonomy by rvosa to the group FAB-lab on 2009-06-27 09:11:43 as along with 1 person djkt
	Evolutionary Data Leaping to Web 3.0: Some Highlights From NESCent's Third Hackathon [My Copy] In ASN/SSB/SSE meeting (2009) by Hilmar Lapp, Arlin Stoltzfus, Todd J. Vision, Rutger A. Vos posted to algorithms data-mining databases dbhack1 evolution nexml ontology programming software xml by rvosa to the group FAB-lab on 2009-06-17 10:20:28 as
	Principles for a names-based cyberinfrastructure to serve all of biology [My Copy] Zootaxa, No. 1950. (2008), pp. 153-163. by David J. Patterson, Sarah Faulwetter, Alexey Shipunov posted to algorithms biodiversity classification data-mining databases phyloinformatics programming software taxonomy by rvosa to the group FAB-lab on 2009-06-09 23:07:40 as
	BEAST: Bayesian evolutionary analysis by sampling trees. [My Copy] BMC evolutionary biology, Vol. 7, No. 1. (08 November 2007), 214. by Alexei J. Drummond, Andrew Rambaut posted to algorithms bayesian markov-chains methods phylogeny phyloinformatics software xml by rvosa to the group FAB-lab on 2009-05-22 07:02:11 as along with 4 people lizbiogen operon druvus treangen
	A Linear-Time Majority Tree Algorithm [My Copy] Algorithms in Bioinformatics (2003), pp. 216-227. by Nina Amenta, Frederick Clarke, Katherine St. John posted to algorithms graph methods phylogeny phyloinformatics software topology by rvosa to the group FAB-lab on 2008-12-18 02:35:27 as
	Abstract A Randomized Linear-time Majority Tree Algorithm [My Copy] by Nina Amenta, Frederick Clarke, Katherine St. John posted to algorithms data-mining methods phylogeny phyloinformatics software by rvosa to the group FAB-lab on 2008-12-18 02:26:43 as
	MAXIMUM LIKELIHOOD FRAMEWORK FOR GENETIC SEQUENCE ANALYSIS [My Copy] by Sergei L. Pond posted to algorithms dna estimation inference likelihood methods models phylogeny phyloinformatics sequence-evolution substitution-models by rvosa to the group FAB-lab on 2008-12-18 02:20:48 as
	BranchClust: A phylogenetic algorithm for selecting gene families [My Copy] BMC Bioinformatics, Vol. 8 (10 April 2007), 120. by Maria S. Poptsova, Peter J. Gogarten posted to algorithms alignment data-mining genome homology methods phylogenomics phyloinformatics programming by rvosa to the group FAB-lab on 2008-08-08 07:02:46 as along with 4 people and 1 group GustavoLacerda cgaugain dandaman stajich Mycology
	Understanding the Metropolis-Hastings Algorithm [My Copy] The American Statistician, Vol. 49, No. 4. (1995), pp. 327-335. by Siddhartha Chib, Edward Greenberg posted to algorithms bayesian markov-chains methods monte-carlo statistics by rvosa to the group FAB-lab on 2008-05-13 01:30:09 as along with 15 people and 1 group fordela ashleygeorge Borelli okouma ldietz pcarbo icosma adriandefroment leonnovelo i-stevenson jrw quianominorleo ansobol markusd nojhan Metaheuristics
	A novel method for economical diagnosis of cladograms under Sankoff optimization [My Copy] Cladistics, Vol. 10 (1994), pp. 207-213. by Ward C. Wheeler, Kevin Nixon posted to algorithms bibtex-import methods parsimony phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as
	Iterative pass optimization of sequence data [My Copy] Cladistics-the International Journal of the Willi Hennig Society, Vol. 19, No. 3. (2003), pp. 254-260. by W. C. Wheeler posted to algorithms alignment bibtex-import methods phylogeny sequence by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as
	Combinatorial weights in phylogenetic analysis: a statistical parsimony procedure [My Copy] Cladistics, Vol. 6 (1990), pp. 269-275. by Ward C. Wheeler posted to algorithms bibtex-import methods parsimony phylogeny weighting by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as
	IQPNNI: Moving Fast Through Tree Space and Stopping in Time [My Copy] Molecular Biology and Evolution, Vol. 21, No. 8. (2004), pp. 1565-1571. by Le S. Vinh, Arndt von Haeseler posted to algorithms bibtex-import likelihood methods by rvosa to the group FAB-lab on 2008-02-06 23:58:29 as
	Inching toward Reality: An Improved Likelihood Model of Sequence Evolution [My Copy] Journal of Molecular Evolution, Vol. 34 (1992), pp. 3-16. by Jeffrey L. Thorne, Hirohisa Kishino, Joseph Felsenstein posted to algorithms alignment bibtex-import evolution likelihood methods programming substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:28 as
	Efficiencies of fast algorithms of phylogenetic inference under the criteria of maximum parsimony, minimum evolution, and maximum likelihood when a large number of sequences are used [My Copy] Molecular Biology and Evolution, Vol. 17, No. 8. (2000), pp. 1251-1258. by K. Takahashi, M. Nei posted to algorithms bibtex-import likelihood methods parsimony by rvosa to the group FAB-lab on 2008-02-06 23:58:28 as
	Distributions of Tree Comparison Metrics - Some New Results [My Copy] Systematic Biology, Vol. 42, No. 2. (1993), pp. 126-141. by M. A. Steel, D. Penny posted to algorithms bibtex-import evolution methods phylogeny topology by rvosa to the group FAB-lab on 2008-02-06 23:58:27 as along with 1 person druvus
	PAUPRat: PAUP* implementation of the parsimony ratchet. [My Copy] (2001) by D. S. Sikes, Paul O. Lewis posted to algorithms bibtex-import methods parsimony software by rvosa to the group FAB-lab on 2008-02-06 23:58:26 as
	Supertree algorithms for ancestral divergence dates and nested taxa [My Copy] Bioinformatics, Vol. 20, No. 0. (2004), pp. 1-6. by C. Semple, P. Daniel, W. Hordijk, Page, M. A. Steel posted to algorithms bibtex-import divergence methods phylogeny supertree by rvosa to the group FAB-lab on 2008-02-06 23:58:26 as
	The neighbor-joining method: a new method for reconstructing phylogenetic trees [My Copy] Molecular Biology and Evolution, Vol. 4 (1987), pp. 406-425. by N. Saitou, M. Nei posted to algorithms bibtex-import methods phenetics phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:24 as
	The use of tree comparison metrics [My Copy] Systematic Zoology, Vol. 34 (1985), pp. 75-82. by D. Penny, M. P. Hendy posted to algorithms bibtex-import methods topology by rvosa to the group FAB-lab on 2008-02-06 23:58:21 as
	NJML+: An extension of the NJML method to handle protein sequence data and computer software implementation [My Copy] Molecular Biology and Evolution, Vol. 18, No. 11. (2001), pp. 1983-1992. by S. Ota, W. H. Li posted to algorithms amino-acid bibtex-import likelihood methods phenetics protein software by rvosa to the group FAB-lab on 2008-02-06 23:58:19 as
	NJML: A hybrid algorithm for the neighbor-joining and maximum-likelihood methods [My Copy] Molecular Biology and Evolution, Vol. 17, No. 9. (2000), pp. 1401-1409. by S. Ota, W. H. Li posted to algorithms bibtex-import likelihood phenetics by rvosa to the group FAB-lab on 2008-02-06 23:58:18 as
	The Parsimony Ratchet, a New Method for Rapid Parsimony Analysis [My Copy] Cladistics, Vol. 15 (1999), pp. 407-414. by Kevin Nixon posted to algorithms bibtex-import methods parsimony phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:18 as
	Dictionary of Algorithms and Data Structures [My Copy] (August 2005) by T. Nis posted to algorithms bibtex-import programming by rvosa to the group FAB-lab on 2008-02-06 23:58:18 as
	Simulated evolutionary optimization and local search: Introduction and application to tree search [My Copy] Cladistics, Vol. 17, No. 1. (2001), pp. S12-S25. by A. Moilanen posted to algorithms bibtex-import methods phylogeny simulation by rvosa to the group FAB-lab on 2008-02-06 23:58:18 as
	Assessing progress in systematics with continuous jackknife function analysis [My Copy] Systematic Biology, Vol. 52, No. 1. (2003), pp. 55-65. by J. A. Miller posted to algorithms bibtex-import characters methods phylogeny weighting by rvosa to the group FAB-lab on 2008-02-06 23:58:17 as
	Equations of state calculations by fast computing machines [My Copy] J. Chem. Phys., Vol. 21 (1953), pp. 1087-1091. by N. Metropolis, A. W. Rosenbluth, M. N. Rosenbluth, A. H. Teller, E. Teller posted to algorithms bibtex-import programming by rvosa to the group FAB-lab on 2008-02-06 23:58:17 as
	A Genetic Algorithm for Maximum-Likelihood Phylogeny Inference Using Nucleotide Sequence Data [My Copy] Molecular Biology and Evolution, Vol. 15, No. 3. (1998), pp. 277-283. by Paul O. Lewis posted to algorithms bibtex-import inference likelihood methods phylogeny reconstruction by rvosa to the group FAB-lab on 2008-02-06 23:58:15 as
	Markov Chain Monte Carlo Algorithms for the Bayesian Analysis of Phylogenetic Trees [My Copy] Molecular Biology and Evolution, Vol. 16, No. 6. (1999), pp. 750-759. by Bret Larget, Donald L. Simon posted to algorithms bayesian bibtex-import markov-chains methods monte-carlo phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:15 as
	Quantitative phyletics and the evolution of anurans [My Copy] Systematic Zoology, Vol. 40 (1969), pp. 446-457. by A. G. Kluge, James S. Farris posted to algorithms bibtex-import characters methods by rvosa to the group FAB-lab on 2008-02-06 23:58:15 as
	Homoplasy Increases Phylogenetic Structure [My Copy] Cladistics, Vol. 15 (1999), pp. 91-93. by Mari Kallersjo, Victor A. Albert, James S. Farris posted to algorithms bibtex-import methods parsimony by rvosa to the group FAB-lab on 2008-02-06 23:58:14 as
	Bonsai: teaching a clown to prune trees [My Copy] No. CMPT TR 91-6. (1991) by L. Hafer posted to algorithms bibtex-import programming topology by rvosa to the group FAB-lab on 2008-02-06 23:58:10 as
	Analyzing large data sets in reasonable times: Solutions for composite optima [My Copy] Cladistics, Vol. 15, No. 4. (1999), pp. 415-428. by P. A. Goloboff posted to algorithms bibtex-import methods parsimony phyloinformatics by rvosa to the group FAB-lab on 2008-02-06 23:58:09 as
	The agreement metric for labeled binary trees [My Copy] Mathematical Bioscience, Vol. 123 (1994), pp. 215-226. by W. Goddard, E. Kubicka, G. Kubicki, F. R. Mcmorris posted to algorithms bibtex-import methods phylogeny topology by rvosa to the group FAB-lab on 2008-02-06 23:58:09 as
	Inferring phylogenies from DNA sequences of unequal base compositions [My Copy] Proceedings of the National Academy of Sciences USA, Vol. 92 (1995), pp. 11317-11321. by Nicolas Galtier, Manolo Gouy posted to algorithms bibtex-import genetics markov-chains methods monte-carlo phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:08 as
	Confidence limits on phylogenies: an approach using the bootstrap [My Copy] Evolution, Vol. 39 (1985), pp. 783-791. by Joseph Felsenstein posted to algorithms bibtex-import methods phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as
	The retention index and the rescaled consistency index [My Copy] Cladistics, Vol. 5 (1989), pp. 417-419. by James S. Farris posted to algorithms bibtex-import characters methods phylogeny topology by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as
	Graph Theory [My Copy] Vol. 173 (2005) by Reinhard Diestel posted to algorithms bibtex-import graph networks topology by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as
	Toward a characterization of landscapes of combinatorial optimization problems, with special attention to the phylogeny problem [My Copy] Journal of Computational Biology, Vol. 2, No. 3. (1995), pp. 439-450. by M. A. Charleston posted to algorithms bibtex-import methods phylogeny by rvosa to the group FAB-lab on 2008-02-06 23:58:04 as
	A method for deducing branching sequences in phylogeny [My Copy] Evolution, Vol. 19 (1965), pp. 311-326. by J. H. Camin, R. R. Sokal posted to algorithms bibtex-import methods phylogeny topology by rvosa to the group FAB-lab on 2008-02-06 23:58:03 as
	Branch support and tree stability [My Copy] Cladistics, Vol. 10 (1994), pp. 295-304. by K. Bremer posted to algorithms bibtex-import methods topology by rvosa to the group FAB-lab on 2008-02-06 23:58:03 as
	Combining trees as a way of combining data sets for phylogenetic inference, and the desirability of combining gene trees [My Copy] Taxon, Vol. 41 (1992), pp. 3-10. by B. R. Baum posted to algorithms bibtex-import data-mining methods mrp phyloinformatics supertree by rvosa to the group FAB-lab on 2008-02-06 23:58:02 as
	Cophenetic correlation analysis as a strategy to select phylogenetically informative proteins: an example from the fungal kingdom [My Copy] BMC Evolutionary Biology, Vol. 7 (09 August 2007), 134. by Eiko E. Kuramae, Vincent Robert, Carlos Echavarri-Erasun, Teun Boekhout posted to algorithms amino-acid data-mining fungi methods phylogenomics phylogeny phyloinformatics proteins by rvosa to the group FAB-lab on 2008-02-01 11:30:06 as along with 2 people and 1 group echinotrix stajich Mycology
	Recent Evolutions of Multiple Sequence Alignment Algorithms [My Copy] PLoS Computational Biology, Vol. 3, No. 8. (1 August 2007), e123. by Cédric Notredame posted to algorithms alignment methods sequence by rvosa to the group FAB-lab on 2008-02-01 11:26:13 as along with 11 people and 1 group druvus treangen mdimmic timflutre stajich zwang cabbagezs groepl yoanjacquemin marti smbe2008 Bioinformatics
	Profiling Phylogenetic Informativeness [My Copy] Systematic Biology, Vol. 56, No. 2. (2007), pp. 222-231. by Jeffrey P. Townsend posted to algorithms animals characters data-mining mammal mammals methods mice phylogeny phyloinformatics rodents vertebrates by rvosa to the group FAB-lab on 2008-02-01 11:18:23 as along with 4 people and 1 group gjuggler aprasad stajich Jporci Mycology
	Improved Consensus Network Techniques for Genome-Scale Phylogeny [My Copy] Molecular Biology and Evolution, Vol. 23, No. 5. (15 May 2006), pp. 848-855. by Barbara R. Holland, Lars S. Jermiin, Vincent Moulton posted to algorithms genome graph methods networks phylogenomics phylogeny phyloinformatics by rvosa to the group FAB-lab on 2008-02-01 11:14:28 as along with 1 person stajich
	Detecting and overcoming systematic errors in genome-scale phylogenies. [My Copy] Syst Biol, Vol. 56, No. 3. (June 2007), pp. 389-399. by N. Rodríguez-Ezpeleta, H. Brinkmann, B. Roure, N. Lartillot, B. F. Lang, H. Philippe posted to algorithms databases data-mining genome methods phylogenomics phylogeny phyloinformatics by rvosa to the group FAB-lab on 2008-02-01 11:12:39 as along with 3 people and 1 group aprasad stajich dandaman Mycology
	New Approaches to Phylogenetic Tree Search and Their Application to Large Numbers of Protein Alignments [My Copy] Systematic Biology, Vol. 56, No. 5. (2007), pp. 727-740. by Simon Whelan posted to algorithms amino-acid methods phylogeny proteins software by rvosa to the group FAB-lab on 2008-02-01 11:11:01 as along with 1 person stajich
	The Bioperl Toolkit: Perl Modules for the Life Sciences [My Copy] Genome Res., Vol. 12, No. 10. (1 October 2002), pp. 1611-1618. by Jason E. Stajich, David Block, Kris Boulez, et al.Steven E. Brenner, Stephen A. Chervitz, Chris Dagdigian, Georg Fuellen, James G. Gilbert, Ian Korf, Hilmar Lapp, Heikki Lehvaslaiho, Chad Matsalla, Chris J. Mungall, Brian I. Osborne, Matthew R. Pocock, Peter Schattner, Martin Senger, Lincoln D. Stein, Elia Stupka, Mark D. Wilkinson, Ewan Birney posted to algorithms alignment databases data-mining methods programming software by rvosa to the group FAB-lab on 2008-02-01 11:05:23 as along with 26 people and 1 group ludaesch jsatkosk kiekyon Thaverkamp Cortel brdwilde daforerog GustavoLacerda krapnik jmeppley chad_davis indigoviolet skhadar dullhunk dgront stajich noby incovoma glycine tyrosine threonine valine nklee hpaces sekmi ninch EisenLab
	Distinguishing protein-coding and noncoding genes in the human genome [My Copy] Proceedings of the National Academy of Sciences, Vol. 104, No. 49. (4 December 2007), pp. 19428-19433. by Michele Clamp, Ben Fry, Mike Kamal, et al.Xiaohui Xie, James Cuff, Michael F. Lin, Manolis Kellis, Kerstin Lindblad-Toh, Eric S. Lander posted to algorithms amino-acid animals data-mining genetics genome hominidae homology humans mammals methods phylogenomics primates proteins rna sequence vertebrates by rvosa to the group FAB-lab on 2008-02-01 11:04:06 as along with 17 people and 2 groups antonkratz jo_davies tmmurali balicea sebastien_vigneau giovanni neils stajich cjeans cabbagezs maximilianh oelemento gjuggler slroberd renatomilani gracio Ema EisenLab Mycology

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graph	421
computation	246
networks	169
complexity	161
quantum	109
physics	107
bioinformatics	104
mathematics	97
optimization	93
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kdd	90
combinatorics	89
stochastic	84
rna	80
distributed	76
graphs	75
quantum-computation	68
theory	66
genetic	65
protein	65
design	61
languages	61
pattern_recognition	61
complex	60
math	60
genetic_algorithms	57
data-structures	56
review	56
algebra	49
structure	49
methods	47
simulation	47
algorithm	45
alignment	45
analysis	45
data_structure	44
geometries	44
clustering	43
functional	42
performance	42
evolutionary-computation	41
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programming	39
image_analysis	38
image_processing	38
software	36
topology	36
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printed	34
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statistics	34
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information	33
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parameterized	30
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genome	26
quantum-information	26
throughput	26
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ai	25
web	25
secondary_structure	24
coding	23
network	23
scp	23
sequence_alignment	23
systems	23
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bayesian	22
mining	22
systems-biology	22
information-theory	21
machine-learning	21
parallel	21
sequence	21
similarity	21
evolutionary	20
masters	20
protein_structure	20
sorting	20
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Group: FAB-lab - with tag algorithms [52 articles] Export

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