Group: FAB-lab - with tag software [47 articles] Export

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

	PhyloPattern: regular expressions to identify complex patterns in phylogenetic trees [My Copy] BMC Bioinformatics, Vol. 10, No. 1. (19 September 2009), 298. by Philippe Gouret, Julie Thompson, Pierre Pontarotti posted to software sequence-evolution protein phyloinformatics phylogeny genome evolution by rvosa to the group FAB-lab on 2009-11-11 03:43:20 as along with 5 people and 1 group nuin stajich scmelton druvus rschulz Mycology
	A semantic web approach applied to integrative bioinformatics experimentation: a biological use case with genomics data [My Copy] Bioinformatics, Vol. 23, No. 22. (15 November 2007), pp. 3080-3087. by Lennart J. G. Post, Marco Roos, M. Scott Marshall, Roel van Driel, Timo M. Breit posted to xml software programming phyloinformatics ontology nexml dbhack1 databases data-mining by rvosa to the group FAB-lab on 2009-09-07 13:51:13 as along with 11 people allysonlister neilswainston fgibson cmzmasek thegoose2 druvus guhjy epigenetics Simplicity tharris dansullivanblk
	A Semantic Web for bioinformatics: goals, tools, systems, applications [My Copy] BMC Bioinformatics, Vol. 9, No. Suppl 4. (2008), S1. by Nicola Cannata, Michael Schroder, Roberto Marangoni, Paolo Romano posted to xml software programming phyloinformatics ontology nexml dbhack1 by rvosa to the group FAB-lab on 2009-09-07 13:49:14 as along with 7 people artaban421 cmzmasek druvus guhjy mariakmejia bootsy dansullivanblk
	Applying Semantic Web Services to Bioinformatics: Experiences Gained, Lessons Learnt [My Copy] The Semantic Web – ISWC 2004 (2004), pp. 350-364. by Phillip Lord, Sean Bechhofer, Mark D. Wilkinson, et al.Gary Schiltz, Damian Gessler, Duncan Hull, Carole Goble, Lincoln Stein posted to xml software programming phyloinformatics ontology nexml dbhack1 data-mining by rvosa to the group FAB-lab on 2009-09-07 13:46:55 as along with 3 people mjbell cmzmasek alanrw
	Biological knowledge management: the emerging role of the Semantic Web technologies. [My Copy] Briefings in Bioinformatics, Vol. 10, No. 4. (19 May 2009), pp. 392-407. by E. Antezana, M. Kuiper, V. Mironov posted to data-mining databases dbhack1 nexml phyloinformatics programming software xml by rvosa to the group FAB-lab on 2009-07-30 21:14:33 as
	Life sciences on the Semantic Web: the Neurocommons and beyond. [My Copy] Briefings in bioinformatics, Vol. 10, No. 2. (1 March 2009), pp. 193-204. by Alan Ruttenberg, Jonathan A. Rees, Matthias Samwald, M. Scott Marshall posted to data-mining databases dbhack1 methods nexml ontology phyloinformatics programming software xml by rvosa to the group FAB-lab on 2009-07-30 21:06:03 as along with 10 people and 1 group jfr Effie guhjy druvus mikel_egana ehealthgr cassj dullhunk allysonlister fgibson NaCTeM
	Advancing translational research with the Semantic Web [My Copy] BMC Bioinformatics, Vol. 8, No. Suppl 3. (2007), S2. by Alan Ruttenberg, Tim Clark, William Bug, et al.Matthias Samwald, Olivier Bodenreider, Helen Chen, Donald Doherty, Kerstin Forsberg, Yong Gao, Vipul Kashyap, June Kinoshita, Joanne Luciano, M. Scott Marshall, Chimezie Ogbuji, Jonathan Rees, Susie Stephens, Gwendolyn Wong, Elizabeth Wu, Davide Zaccagnini, Tonya Hongsermeier, Eric Neumann, Ivan Herman, Kei H. Cheung posted to data-mining databases dbhack1 methods nexml ontology programming software xml by rvosa to the group FAB-lab on 2009-07-30 21:04:48 as along with 26 people and 3 groups beanformer artaban421 nicklynch vkwn eesruiz Effie simonmcbride druvus gmcmahon fgibson nuin daforerog guhjy Cortel wnpx dullhunk hpiwowar egonw suizan jasonbobe ibuch PredictER bmaust benfqt Gaetan dansullivanblk ImagCom - Biomedical Text Computing NaCTeM Evidence-based-medicine
	The ontology of biological taxa [My Copy] Bioinformatics, Vol. 24, No. 13. (1 July 2008), pp. i313-321. by Stefan Schulz, Holger Stenzhorn, Martin Boeker posted to classification data-mining databases dbhack1 nexml phyloinformatics programming software taxonomy xml by rvosa to the group FAB-lab on 2009-07-25 01:53:20 as along with 4 people and 1 group martingerner orovellotti guhjy dullhunk Eco informatics
	PhyloExplorer: a web server to validate, explore and query phylogenetic trees [My Copy] BMC Evolutionary Biology, Vol. 9, No. 1. (18 May 2009), 108. by Vincent Ranwez, Nicolas Clairon, Frederic Delsuc, et al.Saeed Pourali, Nicolas Auberval, Sorel Diser, 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
	Initial Implementation of a Comparative Data Analysis Ontology [My Copy] Evolutionary Bioinformatics (In review) by Francisco Prosdocimi, Brandon Chisham, Enrico Pontelli, Julie D. Thompson, Arlin Stoltzfus posted to nexml ontology phyloinformatics software xml by rvosa to the group FAB-lab on 2009-05-30 06:45:34 as
	TreeBASE v. 2: A Database of Phylogenetic Knowledge [My Copy] In e-BioSphere 2009 (2009) by William H. Piel, Lucie Chan, Mark J. Dominus, Jin Ruan, Rutger A. Vos, Val Tannen posted to databases software by rvosa to the group FAB-lab on 2009-05-30 04:07:35 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
	Comparative analysis by independent contrasts (CAIC): an Apple Macintosh application for analysing comparative data. [My Copy] Computer Appl. Biosciences, Vol. 11 (1999), pp. 247-251. by Andy Purvis, Andrew Rambaut posted to comparative methods software by rvosa to the group FAB-lab on 2008-08-14 03:02:20 as
	Datamonkey: rapid detection of selective pressure on individual sites of codon alignments [My Copy] Bioinformatics, Vol. 21, No. 10. (15 May 2005), pp. 2531-2533. by Sergei L. K. Pond, Simon D. Frost posted to data-mining selection sequence-evolution software substitution-models by rvosa to the group FAB-lab on 2008-08-14 00:43:38 as along with 2 people druvus BioNica
	The Ensembl genome database project. [My Copy] Nucleic acids research, Vol. 30, No. 1. (1 January 2002), pp. 38-41. by T. Hubbard, D. Barker, E. Birney, et al.G. Cameron, Y. Chen, L. Clark, T. Cox, J. Cuff, V. Curwen, T. Down, R. Durbin, E. Eyras, J. Gilbert, M. Hammond, L. Huminiecki, A. Kasprzyk, H. Lehvaslaiho, P. Lijnzaad, C. Melsopp, E. Mongin, R. Pettett, M. Pocock, S. Potter, A. Rust, E. Schmidt, S. Searle, G. Slater, J. Smith, W. Spooner, A. Stabenau, J. Stalker, E. Stupka, A. Ureta-Vidal, I. Vastrik, M. Clamp posted to databases data-mining genome programming software by rvosa to the group FAB-lab on 2008-08-11 07:15:41 as along with 7 people timhubbard niallhaslam brdwilde incovoma kynn raylim CitoJam
	Estimating Evolutionary Rates in the Primate epsilon-globin Pseudogene [My Copy] (12 August 2004) by Toby Johnson posted to animals mammals primates rates software substitution-models vertebrates by rvosa to the group FAB-lab on 2008-02-08 03:13:21 as
	PAML: a program package for phylogenetic analysis by maximum likelihood [My Copy] CABIOS, Vol. 13 (1997), pp. 555-556. by Ziheng Yang posted to bibtex-import likelihood software substitution-models by rvosa to the group FAB-lab on 2008-02-06 23:58:30 as
	CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positions-specific gap penalties and weight matrix choice [My Copy] Nucleic Acids Research, Vol. 22 (1994), pp. 4673-4680. by J. D. Thompson, D. G. Higgins, T. J. Gibson posted to alignment bibtex-import software by rvosa to the group FAB-lab on 2008-02-06 23:58:28 as
	PAUP*: phylogenetic analysis using parsimony, version 4.0b10 [My Copy] (2003) by D. L. Swofford posted to bibtex-import likelihood parsimony phylogeny phyloinformatics software by rvosa to the group FAB-lab on 2008-02-06 23:58:28 as along with 1 person gjuggler
	Bio::CDAT - An Object for Evolutionary Analysis of Data [My Copy] (2006) by A. Stoltzfus, R. A. Vos, J. Reese, W. Qiu posted to alignment bibtex-import evolution inference phyloinformatics programming software by rvosa to the group FAB-lab on 2008-02-06 23:58:27 as
	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
	Analyses of Phylogenetics and Evolution: the ape Package [My Copy] (2003) by E. Paradis, Korbinian Strimmer, J. Claude, Y. Noel, B. Bolker posted to bibtex-import diversification methods models programming rates reconstruction software topology by rvosa to the group FAB-lab on 2008-02-06 23:58:19 as
	TREEVIEW: An application to display phylogenetic trees on personal computers [My Copy] Computer Applications in the Biosciences, Vol. 12 (1996), pp. 357-358. by Page posted to bibtex-import graphics phylogeny software topology by rvosa to the group FAB-lab on 2008-02-06 23:58:19 as along with 1 person gjuggler
	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
	Mesquite: a modular system for evolutionary analysis. [My Copy] (2001) by Wayne P. Maddison, D. R. Maddison posted to alignment bibtex-import comparative data-mining evolution phylogeny phyloinformatics programming software by rvosa to the group FAB-lab on 2008-02-06 23:58:16 as
	The Tree of Life Web Project [My Copy] (2004) by D. R. Maddison, K. S. Schulz posted to bibtex-import biodiversity databases programming software by rvosa to the group FAB-lab on 2008-02-06 23:58:16 as
	PHYLIP - Phylogeny Inference Package (Version 3.2) [My Copy] Cladistics, Vol. 5 (1989), pp. 164-166. by Joseph Felsenstein posted to bibtex-import inference phylogeny software by rvosa to the group FAB-lab on 2008-02-06 23:58:08 as along with 1 person gjuggler
	PAL: An object-oriented programming library for molecular evolution and phylogenetics [My Copy] Bioinformatics, Vol. 17 (2001), pp. 662-663. by A. Drummond, Korbinian Strimmer posted to bibtex-import evolution phylogeny programming software by rvosa to the group FAB-lab on 2008-02-06 23:58:07 as
	Proposal for pyloXML level 1, version 0.2 [My Copy] Vol. 2005, No. August 9. (2005) by Ethalinda K. S. Cannon, C. M. Zmasek posted to bibtex-import programming software xml by rvosa to the group FAB-lab on 2008-02-06 23:58:04 as
	GraphML Progress Report: Structural Layer Proposal [My Copy] In Proc. 9th Intl. Symp. Graph Drawing (GD '01) (2001), pp. 501-512. by U. Brandes, M. Eiglsperger, I. Herman, M. Himsolt, M. S. Marshall posted to bibtex-import programming software xml by rvosa to the group FAB-lab on 2008-02-06 23:58:03 as
	Overcoming The Object-Relational Impedance Mismatch [My Copy] In Agile database techniques (2003) by Scott Ambler posted to bibtex-import databases programming software by rvosa to the group FAB-lab on 2008-02-06 23:58:02 as
	Basic local alignment search tool [My Copy] Journal of Molecular Biology, Vol. 215 (1990), pp. 403-410. by S. F. Altschul, W. Gish, W. Miller, E. W. Myers, D. J. Lipman posted to alignment bibtex-import software by rvosa to the group FAB-lab on 2008-02-06 23:58:02 as
	GNU General Public License version 2 [My Copy] (1991) posted to bibtex-import programming software by rvosa to the group FAB-lab on 2008-02-06 23:58:01 as
	PHY.FI: fast and easy online creation and manipulation of phylogeny color figures. [My Copy] BMC bioinformatics, Vol. 7 (22 June 2006), 315. by J. Fredslund posted to graph graphics phylogeny software by rvosa to the group FAB-lab on 2008-02-01 11:20:10 as along with 3 people kshameer nuin stajich
	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
	NEXUS: An Extensible File Format for Systematic Information [My Copy] Systematic Biology, Vol. 46, No. 4. (1997), pp. 590-621. by David R. Maddison, David L. Swofford, Wayne P. Maddison posted to data-mining phyloinformatics software by rvosa to the group FAB-lab on 2007-11-29 08:27:27 as
	An XML-based system for synthesis of data from disparate databases. [My Copy] J Am Med Inform Assoc, Vol. 13, No. 3. (n 2006), pp. 289-301. by T. Kurc, D. A. Janies, A. D. Johnson, et al.S. Langella, S. Oster, S. Hastings, F. Habib, T. Camerlengo, D. Ervin, U. V. Catalyurek, J. H. Saltz posted to comparative data-mining phyloinformatics reconstruction software by rvosa to the group FAB-lab on 2007-11-27 23:34:47 as
	JMATING: a software for the analysis of sexual selection and sexual isolation effects from mating frequency data [My Copy] BMC Evolutionary Biology, Vol. 6 (2006), pp. 40-40. by Antonio Carvajal-Rodriguez, Emilio Rolan-Alvarez posted to software by cmm to the group FAB-lab on 2006-08-05 00:58:27 as
	PHYFI: fast and easy online creation and manipulation of phylogeny color figures [My Copy] BMC Bioinformatics, Vol. 7 (2006), pp. 315-315. by J. Fredslund posted to phylogenetics software by cmm to the group FAB-lab on 2006-08-05 00:52:35 as
	EstimateS: Biodiversity Estimation Software [My Copy] by Robert K. Colwell posted to biodiversity similarity software by cmm to the group FAB-lab on 2006-02-19 20:32:17 as
	MrBayes 3: Bayesian phylogenetic inference under mixed models. [My Copy] Bioinformatics, Vol. 19, No. 12. (12 August 2003), pp. 1572-1574. by F. Ronquist, J. P. Huelsenbeck posted to bayesian inference likelihood phylogeny software by rvosa to the group FAB-lab on 2005-10-12 21:40:43 as along with 6 people aprasad renewang alexeid chrn spavey AaronDarling
	MRBAYES: Bayesian inference of phylogenetic trees [My Copy] Bioinformatics, Vol. 17, No. 8. (1 August 2001), pp. 754-755. by John P. Huelsenbeck, Fredrik Ronquist posted to bayesian inference likelihood phylogeny software by rvosa to the group FAB-lab on 2005-10-12 21:40:08 as along with 9 people ckenaley BioNica lmichan druvus treangen bpb spavey AaronDarling CharlesM

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bioinformatics	429
architecture	419
engineering	254
software-engineering	240
design	235
evolution	219
software-architecture	187
alignment	167
social	167
network	160
tool	152
development	143
r	137
programming	135
analysis	133
genome	123
genomics	117
algorithm	115
snp	107
visualization	105
statistics	104
microarray	102
database	99
phylogeny	93
annotation	90
proteomics	90
security	86
sequence	80
structure	80
methods	76
simulation	76
master_thesis	69
requirements	68
review	68
classification	66
networks	62
web	61
management	59
assembly	58
empirical	58
ma	57
model	57
testing	57
education	55
phylogenetics	54
clustering	52
patterns	51
sequencing	51
genetics	50
modelling	50
ontology	50
quality	50
tools	49
safety	48
metrics	47
book	45
data-mining	45
evaluation	45
reuse	45
bioconductor	44
method	43
process	43
collaboration	42
open	42
pattern	41
systems	41
gene	40
maintenance	40
metagenomics	40
source	40
xml	40
ip	38
protein	38
computer	37
databases	37
repeat	37
algorithms	36
bayesian	36
methodology	36
data	35
interface	35
python	35
uml	34
taxonomy	33
eni	31
mirna	31
prediction	31
rna	31
selection	31
visualisation	31
agents	30
agile	30
bacteria	30
integration	30
models	30
browser	29
detection	29
multiple	29
opensource	29
pathway	28

Group: FAB-lab - with tag software [47 articles] Export

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