myExperiment

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Simon Fischer

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Who Wants to be a Data Miner?

Created: 2011-11-02 17:54:07 | Last updated: 2013-09-09 16:22:11

One of the most fun events at the annual RapidMiner Community Meeting and Conference (RCOMM) is the live data mining process design competition "Who Wants to be a Data Miner?". In this competition, participants must design RapidMiner processes for a given goal within a few minutes. The tasks are related to data mining and data analysis, but are rather uncommon. In fact, most of the challenges ask for things RapidMiner was never supposed to do. This pack contains solutions for these...

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Peter Li

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Systematic integration of experimental data and mode...

Created: 2010-03-25 20:31:36 | Last updated: 2010-03-26 17:23:44

A pack of workflows for the construction, parameterisation, optimisation and simulation of SBML models.

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Paul Fisher

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Genotype to Pathway

Created: 2009-08-11 14:44:16 | Last updated: 2009-08-11 14:52:12

This pack is for investigating links between the genotype of an organisms to possible pathways. This constitutes half of the pathway-driven approach, genotype to pathway, and pathway to phenotype.

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Andrea Wiggins

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FLOSS Research Analyses

Created: 2009-06-05 13:58:56 | Last updated: 2009-06-05 13:59:52

Workflows for analysis of free/libre open source software development.

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Alan Williams

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Taverna 2.1 beta 1 pack

Created: 2009-05-29 13:16:30 | Last updated: 2012-03-05 11:34:00

Introduction This is a pack for the first beta of Taverna 2.1 It includes a zip of Taverna 2.1 beta 1. The zip includes the executable of Taverna 2.1 beta 1, some example files, release notes and a list of known issues. If you have any comments or problems with the beta, then please post them as comments to this pack, or preferably to the taverna-hackers@lists.sourceforge.net Welcome to Taverna 2.1 Beta 1 workbench Due to user response to Taverna 2 workbench, major improveme...

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David De Roure

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myExperiment paper for Concurrency Practice and Expe...

Created: 2009-04-10 13:41:56 | Last updated: 2009-04-14 08:38:09

This pack contains the materials used in the paper De Roure, D., Goble, C., Aleksejevs, S., Bechhofer, S., Bhagat, J., Cruickshank, D., Fisher, P., Hull, D., Michaelides, D., Newman, D., Procter, R., Lin, Y. and Poschen, M. (2009) Towards Open Science: The myExperiment approach. Concurrency and Computation: Practice and Experience. which has been submitted to the special issue of CCPE based on the Micorosfot e-Science workshop in Indianaopolis, December 2008. The paper uses a pack by Pail ...

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David De Roure

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Carole's Keynotes

Created: 2008-09-27 19:52:17 | Last updated: 2010-05-08 20:24:47

Carole Goble's 2008 keynote talks that feature myExperiment, in PowerPoint 97-2003 format. All myExperiment presentation can be found on the wiki on http://wiki.myexperiment.org/index.php/Presentations

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Marco Roos

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AIDA toolbox

Created: 2008-08-01 11:33:03 | Last updated: 2010-02-14 16:04:25

Adaptive Information Disclosure Application toolbox: AIDA web services for automated knowledge extraction and knowledge management Documentation

9 items in this pack

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Thomas Duigou

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KNIME workflows and associated data from Koch et. al...

Created: 2017-06-29 17:26:00 | Last updated: 2017-12-19 10:19:21

The pack provides the KNIME workflows and associated data from:Koch M, Duigou T, Carbonell P, Faulon JL. Molecular structures enumeration and virtual screening in the chemical space with RetroPath2.0. Journal of Cheminformatics, 9:64, 2017. https://doi.org/10.1186/s13321-017-0252-9Please browse the linked packs below.

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Eleni

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Supporting material for paper: A putative role for g...

Created: 2013-11-06 10:34:47 | Last updated: 2017-04-19 11:22:27

This pack contains links that refer to the myExperiment packs and Research object links that describe our two sets of workflow implementation, for data analysis and for data interpretation.

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Jose Enrique Ruiz

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AstroTaverna Starter Pack

Created: 2013-04-12 16:10:31 | Last updated: 2013-11-27 16:54:39

This is a set of small snippets using AstroTaverna plugin, developed in the Wf4Ever project. The purpose of this pack is to make the design and development of astronomy Virtual Observatory workflows easier, learning by the example.AstroTaverna may be installed on Taverna 2.4 Workbenchhttp://wf4ever.github.io/astrotaverna/

29 items in this pack

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Stian Soiland-Reyes

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Visualize PAV provenance as SVG

Created: 2013-04-05 09:18:51 | Last updated: 2018-01-04 11:39:09

A workflow that converts PAV provenance to SVG by inferring PROV-O statements.VoID descriptions following the Open PHACTS Dataset descriptions specification are fetched as Turtle, cleaned up to be valid OWL2 ontology and include useful labels, processed through the OWL reasoner Pellet; this adds inferred PROV statements to the RDF, which is then fed to the PROV Toolbox, generating an SVG visualization of the provenance.Note that this workflow downloads CWM, Pellet and ProvToolbox on dema...

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ontology
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owl
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pav
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pellet
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prov
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provenance
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provtoolbox
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rdf
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svg

Creator

Matko BoÅ¡njak

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e-LICO recommender workflows

Created: 2011-03-15 15:33:48 | Last updated: 2012-01-28 19:39:06

This pack contains recommender system workflows created for the purpose of e-LICO project.

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Szypul

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projekt v2

Created: 2009-06-08 11:12:52 | Last updated: 2009-06-17 14:34:18

Example project. It takes geographical coordinates and search target(ex. "pubs") to find them near the capital city of a country containing these coordinates.

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Andrea Wiggins

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Network Analysis

Created: 2009-06-05 14:01:31 | Last updated: 2009-06-05 14:01:56

Workflows that employ (social) network analysis.

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Andrea Wiggins

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Metadata Management

Created: 2009-06-05 13:54:55 | Last updated: 2009-06-05 13:55:34

Workflows dealing with creating and updating metadata records.

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Marco Roos

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Supporting material for Roos et al., BMC Bioinformat...

Created: 2009-05-15 15:45:32 | Last updated: 2011-08-11 10:01:23

Supporting material for BMC Bioinformatics, supplement for Semantic Web Applications and Tools for Life Science (2009) Structuring and extracting knowledge for the support of hypothesis generation in molecular biology Marco Roos, M. Scott Marshall, Andrew P. Gibson, Martijn Schuemie, Edgar Meij, Sophia Katrenko, Willem Robert van Hage, Konstantinos Krommydas, Pieter W. Adriaans Acknowledgements We thank the myGrid team and OMII-UK for their support in applying their e-Science tools, and M...

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JosÃ© Manuel RodrÃguez

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FunCUT package

Created: 2008-10-03 16:47:15 | Last updated: 2008-10-03 16:48:55

Input example and FunCUT workflow

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David De Roure

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myExperiment Papers

Created: 2008-09-27 20:14:10 | Last updated: 2008-09-27 22:09:49

This pack contains all the myExperiment papers. They can also be found on the myExperiment Wiki on http://wiki.myexperiment.org/index.php/Papers and are stored in ECS EPrints where they can be retrieved with this query http://eprints.ecs.soton.ac.uk/cgi/search/advanced?projects=myexperiment

11 items in this pack

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Creator

Paul Fisher

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Newcastle NeuroScience

Created: 2008-08-04 17:35:59 | Last updated: 2008-09-01 17:00:14

This pack contains two PowerPoint presentations given at the 01/08/2008 Taverna and myExperiment tutorial.

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Marco Roos

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e-science tool pack

Created: 2008-08-01 10:52:42 | Last updated: 2008-08-01 12:06:07

Pack of tools and software components that can be used to enhance your research. 'e-science' characteristics: interoperabie with other tools free to use by academics components can be shared and reused, potentially for other means stimulating sharing and reusing components

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Antoon Goderis

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Peter Li workflows for benchmarks PR and CA2

Created: 2008-07-13 20:32:39 | Last updated: 2008-07-13 20:47:19

Please note that the workflows in this pack are not being maintained. For updated workflows check out http://www.myexperiment.org/users/221

66 items in this pack

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benchmarks

Creator

Antoon Goderis

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Workflow discovery benchmarks

Created: 2008-07-12 11:20:23 | Last updated: 2008-10-09 16:41:46

This pack contains benchmarks that measure how bioinformaticians discover Taverna workflows. Several subpacks are available: Collection of workflows by Paul Fisher, used in benchmarks PR2 and CA2 Collection of workflows by Peter Li, used in benchmarks PR2 and CA2

7 items in this pack

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benchmarks

Creator

Franck Tanoh

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web services info

Created: 2008-07-02 17:15:34 | Last updated: 2008-07-13 23:00:16

This pack contains useful info related to bio services.

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web services

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Thomas Duigou

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Pack #4 - Metabolome completion and metabolomics

Created: 2017-06-30 16:36:44 | Last updated: 2017-12-19 10:22:42

This pack provides part of the supporting material for:Koch M, Duigou T, Carbonell P, Faulon JL. Molecular structures enumeration and virtual screening in the chemical space with RetroPath2.0. Journal of Cheminformatics, 9:64, 2017. https://doi.org/10.1186/s13321-017-0252-9The pack contains (i) the RetroPath2.0-Mods-metabolomics workflow as well as (ii) all the associated data for the metabolome completion use case (see the main text for details, section 2.4 Metabolome completion and metabolo...

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