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    Results: 1 to 20 of 105

    1.

    PyCogent: a toolkit for making sense from sequence.

    Knight R, Maxwell P, Birmingham A, Carnes J, Caporaso JG, Easton BC, Eaton M, Hamady M, Lindsay H, Liu Z, Lozupone C, McDonald D, Robeson M, Sammut R, Smit S, Wakefield MJ, Widmann J, Wikman S, Wilson S, Ying H, Huttley GA.

    Genome Biol. 2007;8(8):R171.

    PMID:
    17708774
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    2.

    Taverna: a tool for building and running workflows of services.

    Hull D, Wolstencroft K, Stevens R, Goble C, Pocock MR, Li P, Oinn T.

    Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W729-32.

    PMID:
    16845108
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    3.

    The MIGenAS integrated bioinformatics toolkit for web-based sequence analysis.

    Rampp M, Soddemann T, Lederer H.

    Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W15-9.

    PMID:
    16844980
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    4.

    Mocapy++--a toolkit for inference and learning in dynamic Bayesian networks.

    Paluszewski M, Hamelryck T.

    BMC Bioinformatics. 2010 Mar 12;11:126.

    PMID:
    20226024
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    5.

    SCARF: maximizing next-generation EST assemblies for evolutionary and population genomic analyses.

    Barker MS, Dlugosch KM, Reddy AC, Amyotte SN, Rieseberg LH.

    Bioinformatics. 2009 Feb 15;25(4):535-6. Epub 2009 Jan 6.

    PMID:
    19129211
    [PubMed - indexed for MEDLINE]
    Free Article
    6.

    Easyfig: a genome comparison visualizer.

    Sullivan MJ, Petty NK, Beatson SA.

    Bioinformatics. 2011 Apr 1;27(7):1009-10. Epub 2011 Jan 28.

    PMID:
    21278367
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    7.

    EDGAR: a software framework for the comparative analysis of prokaryotic genomes.

    Blom J, Albaum SP, Doppmeier D, Pühler A, Vorhölter FJ, Zakrzewski M, Goesmann A.

    BMC Bioinformatics. 2009 May 20;10:154.

    PMID:
    19457249
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    8.

    AssociationViewer: a scalable and integrated software tool for visualization of large-scale variation data in genomic context.

    Martin O, Valsesia A, Telenti A, Xenarios I, Stevenson BJ.

    Bioinformatics. 2009 Mar 1;25(5):662-3. Epub 2009 Jan 25.

    PMID:
    19168913
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    9.

    Databases of homologous gene families for comparative genomics.

    Penel S, Arigon AM, Dufayard JF, Sertier AS, Daubin V, Duret L, Gouy M, Perrière G.

    BMC Bioinformatics. 2009 Jun 16;10 Suppl 6:S3.

    PMID:
    19534752
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    10.

    Functional analysis of OMICs data and small molecule compounds in an integrated "knowledge-based" platform.

    Nikolsky Y, Kirillov E, Zuev R, Rakhmatulin E, Nikolskaya T.

    Methods Mol Biol. 2009;563:177-96.

    PMID:
    19597786
    [PubMed - indexed for MEDLINE]
    11.

    Sequence-specific reconstruction from fragmentary databases using seed sequences: implementation and validation on SAGE, proteome and generic sequencing data.

    Sobreira TJ, Gruber A.

    Bioinformatics. 2008 Aug 1;24(15):1676-80. Epub 2008 Jun 9.

    PMID:
    18544546
    [PubMed - indexed for MEDLINE]
    Free Article
    12.

    MANTIS: a phylogenetic framework for multi-species genome comparisons.

    Tzika AC, Helaers R, Van de Peer Y, Milinkovitch MC.

    Bioinformatics. 2008 Jan 15;24(2):151-7. Epub 2007 Nov 19.

    PMID:
    18025004
    [PubMed - indexed for MEDLINE]
    Free Article
    13.

    MetaLook: a 3D visualisation software for marine ecological genomics.

    Lombardot T, Kottmann R, Giuliani G, de Bono A, Addor N, Glöckner FO.

    BMC Bioinformatics. 2007 Oct 22;8:406.

    PMID:
    17953757
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    14.

    The Genomedata format for storing large-scale functional genomics data.

    Hoffman MM, Buske OJ, Noble WS.

    Bioinformatics. 2010 Jun 1;26(11):1458-9. Epub 2010 Apr 29.

    PMID:
    20435580
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    15.

    PlasmoGF: an integrated system for comparative genomics and phylogenetic analysis of Plasmodium gene families.

    Xu X, Wu J, Xiao J, Tan Y, Bao Q, Zhao F, Li X.

    Bioinformatics. 2008 May 1;24(9):1217-20. Epub 2008 Mar 12.

    PMID:
    18337260
    [PubMed - indexed for MEDLINE]
    Free Article
    16.

    The PAZAR database of gene regulatory information coupled to the ORCA toolkit for the study of regulatory sequences.

    Portales-Casamar E, Arenillas D, Lim J, Swanson MI, Jiang S, McCallum A, Kirov S, Wasserman WW.

    Nucleic Acids Res. 2009 Jan;37(Database issue):D54-60. Epub 2008 Oct 29.

    PMID:
    18971253
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    17.

    Alignment of genomic sequences using DIALIGN.

    Morgenstern B.

    Methods Mol Biol. 2007;395:195-204.

    PMID:
    17993675
    [PubMed - indexed for MEDLINE]
    18.

    Analysis of functional genomic signals using the XOR gate.

    Yaragatti M, Wen Q.

    PLoS One. 2009;4(5):e5608. Epub 2009 May 19.

    PMID:
    19440336
    [PubMed - indexed for MEDLINE]
    Free PMC Article
    19.

    Genomics made easier: an introductory tutorial to genome datamining.

    Schattner P.

    Genomics. 2009 Mar;93(3):187-95. Epub 2008 Dec 5.

    PMID:
    19041391
    [PubMed - indexed for MEDLINE]
    20.

    OrthoSelect: a protocol for selecting orthologous groups in phylogenomics.

    Schreiber F, Pick K, Erpenbeck D, Wörheide G, Morgenstern B.

    BMC Bioinformatics. 2009 Jul 16;10:219.

    PMID:
    19607672
    [PubMed - indexed for MEDLINE]
    Free PMC Article

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