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Items: 1 to 20 of 192

1.

TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing.

Schmidt HA, Strimmer K, Vingron M, von Haeseler A.

Bioinformatics. 2002 Mar;18(3):502-4.

PMID:
11934758
2.

Random Tree-Puzzle leads to the Yule-Harding distribution.

Vinh le S, Fuehrer A, von Haeseler A.

Mol Biol Evol. 2011 Feb;28(2):873-7. doi: 10.1093/molbev/msq212. Epub 2010 Aug 12.

PMID:
20705907
3.

Parallelized multiple alignment.

Kleinjung J, Douglas N, Heringa J.

Bioinformatics. 2002 Sep;18(9):1270-1.

PMID:
12217922
4.

fastDNAmL: a tool for construction of phylogenetic trees of DNA sequences using maximum likelihood.

Olsen GJ, Matsuda H, Hagstrom R, Overbeek R.

Comput Appl Biosci. 1994 Feb;10(1):41-8.

PMID:
8193955
5.

ClustalW-MPI: ClustalW analysis using distributed and parallel computing.

Li KB.

Bioinformatics. 2003 Aug 12;19(12):1585-6.

PMID:
12912844
6.

pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies.

Minh BQ, Vinh le S, von Haeseler A, Schmidt HA.

Bioinformatics. 2005 Oct 1;21(19):3794-6. Epub 2005 Jul 26.

PMID:
16046495
7.

PAML 4: phylogenetic analysis by maximum likelihood.

Yang Z.

Mol Biol Evol. 2007 Aug;24(8):1586-91. Epub 2007 May 4.

PMID:
17483113
8.

DPRml: distributed phylogeny reconstruction by maximum likelihood.

Keane TM, Naughton TJ, Travers SA, McInerney JO, McCormack GP.

Bioinformatics. 2005 Apr 1;21(7):969-74. Epub 2004 Oct 28.

PMID:
15513992
9.
10.

PAMLX: a graphical user interface for PAML.

Xu B, Yang Z.

Mol Biol Evol. 2013 Dec;30(12):2723-4. doi: 10.1093/molbev/mst179. Epub 2013 Oct 7.

PMID:
24105918
11.

MultiPhyl: a high-throughput phylogenomics webserver using distributed computing.

Keane TM, Naughton TJ, McInerney JO.

Nucleic Acids Res. 2007 Jul;35(Web Server issue):W33-7. Epub 2007 Jun 6.

12.

MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0.

Tamura K, Dudley J, Nei M, Kumar S.

Mol Biol Evol. 2007 Aug;24(8):1596-9. Epub 2007 May 7.

PMID:
17488738
13.

PHYML Online--a web server for fast maximum likelihood-based phylogenetic inference.

Guindon S, Lethiec F, Duroux P, Gascuel O.

Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W557-9.

14.

RAxML-III: a fast program for maximum likelihood-based inference of large phylogenetic trees.

Stamatakis A, Ludwig T, Meier H.

Bioinformatics. 2005 Feb 15;21(4):456-63. Epub 2004 Dec 17.

PMID:
15608047
15.

jModelTest: phylogenetic model averaging.

Posada D.

Mol Biol Evol. 2008 Jul;25(7):1253-6. doi: 10.1093/molbev/msn083. Epub 2008 Apr 8.

PMID:
18397919
16.

Dendroscope: An interactive viewer for large phylogenetic trees.

Huson DH, Richter DC, Rausch C, Dezulian T, Franz M, Rupp R.

BMC Bioinformatics. 2007 Nov 22;8:460.

17.

STEM: species tree estimation using maximum likelihood for gene trees under coalescence.

Kubatko LS, Carstens BC, Knowles LL.

Bioinformatics. 2009 Apr 1;25(7):971-3. doi: 10.1093/bioinformatics/btp079. Epub 2009 Feb 10.

PMID:
19211573
18.

Sight: automating genomic data-mining without programming skills.

Meskauskas A, Lehmann-Horn F, Jurkat-Rott K.

Bioinformatics. 2004 Jul 22;20(11):1718-20. Epub 2004 Feb 26.

PMID:
14988103
19.

Multiple sequence alignment in parallel on a workstation cluster.

Ebedes J, Datta A.

Bioinformatics. 2004 May 1;20(7):1193-5. Epub 2004 Feb 5.

PMID:
14764554
20.

QDist--quartet distance between evolutionary trees.

Mailund T, Pedersen CN.

Bioinformatics. 2004 Jul 10;20(10):1636-7. Epub 2004 Feb 12.

PMID:
14962942

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