myExperiment

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Marco Roos

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AIDA demo pack

Created: 2008-12-14 21:35:43 | Last updated: 2009-05-01 17:35:26

Pack with AIDA demo material

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Wassinki

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Package: mapping oligonucleotides to an assembly

Created: 2008-12-11 12:02:47 | Last updated: 2009-01-22 09:06:26

This package contains all elements required to run the RShell use case "Mapping oligonucleotides to an assembly"

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Jiten Bhagat

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Everything You Need To Know About myExperiment...

Created: 2008-07-02 22:31:12 | Last updated: 2008-07-02 23:12:37

... but were afraid to ask. This is the pack to go to for all information about myExperiment and the people involved in this project!

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Maria Paula Balcazar-Vargas

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Matrix Population Model construction and analysis pack

Created: 2013-08-13 14:31:09 | Last updated: 2015-06-12 13:48:43

This pack contains a workflow, a file and documentation (tutorial to run the workflow).The Matrix Population Models Workflow provides an environment for create a stage-matrix with no density dependence and perform several analyses on it.Analyses:Eigen analysis.Age specific survival.Generation time (T).Net reproductive rate (Ro).Transient Dynamics.Bootstrap of observed census transitions (Confidence intervals of λ).Survival curveKeyfitz’s ΔCohen’s cumulative distanceTh...

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Kristina Hettne

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Functional annotation of SNPs using next-generation ...

Created: 2012-06-26 10:41:38 | Last updated: 2015-09-01 14:31:18

This pack implements the concept profile matching pipeline in the knowledge discovery tool Anni (http://biosemantics.org/anni), and adapts it to interpret the top SNPs from a GWAS. The underlying literature and concept profile databases are the same as the for the current version of Anni (2.1). The pack consists of three main workflows (http://www.myexperiment.org/workflows/2999, http://www.myexperiment.org/workflows/2973, http://www.myexperiment.org/workflows/2972). Workflow 2999 returns a ...

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concept
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ensembl
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evidence
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gene
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GO
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literature
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ontology
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profile
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snp

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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/

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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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