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Items: 1 to 20 of 126

1.

New developments on the cheminformatics open workflow environment CDK-Taverna.

Truszkowski A, Jayaseelan KV, Neumann S, Willighagen EL, Zielesny A, Steinbeck C.

J Cheminform. 2011 Dec 13;3:54. doi: 10.1186/1758-2946-3-54.

2.

CDK-Taverna: an open workflow environment for cheminformatics.

Kuhn T, Willighagen EL, Zielesny A, Steinbeck C.

BMC Bioinformatics. 2010 Mar 29;11:159. doi: 10.1186/1471-2105-11-159.

3.

KNIME-CDK: Workflow-driven cheminformatics.

Beisken S, Meinl T, Wiswedel B, de Figueiredo LF, Berthold M, Steinbeck C.

BMC Bioinformatics. 2013 Aug 22;14:257. doi: 10.1186/1471-2105-14-257.

4.

The Taverna workflow suite: designing and executing workflows of Web Services on the desktop, web or in the cloud.

Wolstencroft K, Haines R, Fellows D, Williams A, Withers D, Owen S, Soiland-Reyes S, Dunlop I, Nenadic A, Fisher P, Bhagat J, Belhajjame K, Bacall F, Hardisty A, Nieva de la Hidalga A, Balcazar Vargas MP, Sufi S, Goble C.

Nucleic Acids Res. 2013 Jul;41(Web Server issue):W557-61. doi: 10.1093/nar/gkt328. Epub 2013 May 2.

5.

Tavaxy: integrating Taverna and Galaxy workflows with cloud computing support.

Abouelhoda M, Issa SA, Ghanem M.

BMC Bioinformatics. 2012 May 4;13:77. doi: 10.1186/1471-2105-13-77.

6.

Natural product-likeness score revisited: an open-source, open-data implementation.

Jayaseelan KV, Moreno P, Truszkowski A, Ertl P, Steinbeck C.

BMC Bioinformatics. 2012 May 20;13:106. doi: 10.1186/1471-2105-13-106.

7.

BioMoby extensions to the Taverna workflow management and enactment software.

Kawas E, Senger M, Wilkinson MD.

BMC Bioinformatics. 2006 Nov 30;7:523.

8.

The Chemistry Development Kit (CDK) v2.0: atom typing, depiction, molecular formulas, and substructure searching.

Willighagen EL, Mayfield JW, Alvarsson J, Berg A, Carlsson L, Jeliazkova N, Kuhn S, Pluskal T, Rojas-Chertó M, Spjuth O, Torrance G, Evelo CT, Guha R, Steinbeck C.

J Cheminform. 2017 Jun 6;9(1):33. doi: 10.1186/s13321-017-0220-4. Erratum in: J Cheminform. 2017 Sep 20;9(1):53.

9.

Classification of bioinformatics workflows using weighted versions of partitioning and hierarchical clustering algorithms.

Lord E, Diallo AB, Makarenkov V.

BMC Bioinformatics. 2015 Mar 3;16:68. doi: 10.1186/s12859-015-0508-1.

10.

Performing statistical analyses on quantitative data in Taverna workflows: an example using R and maxdBrowse to identify differentially-expressed genes from microarray data.

Li P, Castrillo JI, Velarde G, Wassink I, Soiland-Reyes S, Owen S, Withers D, Oinn T, Pocock MR, Goble CA, Oliver SG, Kell DB.

BMC Bioinformatics. 2008 Aug 7;9:334. doi: 10.1186/1471-2105-9-334.

11.

Using R in Taverna: RShell v1.2.

Wassink I, Rauwerda H, Neerincx PB, van der Vet PE, Breit TM, Leunissen JA, Nijholt A.

BMC Res Notes. 2009 Jul 16;2:138. doi: 10.1186/1756-0500-2-138.

12.

Support for Taverna workflows in the VPH-Share cloud platform.

Kasztelnik M, Coto E, Bubak M, Malawski M, Nowakowski P, Arenas J, Saglimbeni A, Testi D, Frangi AF.

Comput Methods Programs Biomed. 2017 Jul;146:37-46. doi: 10.1016/j.cmpb.2017.05.006. Epub 2017 May 20.

PMID:
28688488
13.
14.

Distilling structure in Taverna scientific workflows: a refactoring approach.

Cohen-Boulakia S, Chen J, Missier P, Goble C, Williams AR, Froidevaux C.

BMC Bioinformatics. 2014;15 Suppl 1:S12. doi: 10.1186/1471-2105-15-S1-S12. Epub 2014 Jan 10.

15.

CaGrid Workflow Toolkit: a Taverna based workflow tool for cancer grid.

Tan W, Madduri R, Nenadic A, Soiland-Reyes S, Sulakhe D, Foster I, Goble CA.

BMC Bioinformatics. 2010 Nov 2;11:542. doi: 10.1186/1471-2105-11-542.

16.

Automated manipulation of systems biology models using libSBML within Taverna workflows.

Li P, Oinn T, Soiland S, Kell DB.

Bioinformatics. 2008 Jan 15;24(2):287-9. Epub 2007 Dec 1.

PMID:
18056069
17.

The Taverna Interaction Service: enabling manual interaction in workflows.

Lanzén A, Oinn T.

Bioinformatics. 2008 Apr 15;24(8):1118-20. doi: 10.1093/bioinformatics/btn082. Epub 2008 Mar 12.

PMID:
18337261
18.

XQTav: an XQuery processor for Taverna environment.

Sroka J, Kaczor G, Tyszkiewicz J, Kierzek AM.

Bioinformatics. 2006 May 15;22(10):1280-1. Epub 2006 Mar 21.

PMID:
16551662
19.

CalcTav--integration of a spreadsheet and Taverna workbench.

Sroka J, Krupa Ł, Kierzek AM, Tyszkiewicz J.

Bioinformatics. 2011 Sep 15;27(18):2618-9. doi: 10.1093/bioinformatics/btr425. Epub 2011 Jul 19.

PMID:
21775305
20.

Biowep: a workflow enactment portal for bioinformatics applications.

Romano P, Bartocci E, Bertolini G, De Paoli F, Marra D, Mauri G, Merelli E, Milanesi L.

BMC Bioinformatics. 2007 Mar 8;8 Suppl 1:S19.

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