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Showing 4527 results. Use the filters on the left and the search box below to refine the results.
Taverna 1
Uploader
120?size=60x60 Ie Niall Haslam

Workflow GlobPlotExample (1)

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This is a sample for how to get the new GlobPlot native disorder and globularity prediction webservice working. At the moment it seems you need all the parameters - even the optional ones filled in, to work in taverna.

Created: 2008-04-30 | Last updated: 2008-04-30

Credits: User Niall Haslam

Taverna 1
Uploader
25?size=60x60 England David Withers

Workflow Html output test (1)

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Workflow for testing the html rendering on myExperiment

Created: 2008-03-04 | Last updated: 2008-09-08

Credits: User David Withers

Uploader
255?size=60x60 Hong Chang Bum
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Blob pdf file test

Created: 2007-11-16 00:31:00

Credits: User Hong Chang Bum

License: Creative Commons Attribution-Share Alike 3.0 Unported License

pdf file test

File type: Unknown

Comments: 0 | Viewed: 85 times | Downloaded: 0 times

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Creator
Avatar Fr Thomas Duigou
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Pack 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.

4 items in this pack

Comments: 0 | Viewed: 71 times | Downloaded: 32 times

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Galaxy
Uploader
Avatar Chris

Workflow AmrPlusPlus Paired Workflow (9)

AmrPlusPlus is a Galaxy-based metagenomics pipeline that is intuitive and easy to use. The pipeline takes advantage of current and new tools to help identify and characterize resistance genes from metagenomic sequence data.

Created: 2016-08-05 | Last updated: 2016-11-18

Credits: User Chris

Uploader
Avatar Richard Marchese Robinson
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Blob NanoPUZZLES ISA-TAB-Nano Templates

Created: 2015-03-27 14:29:30 | Last updated: 2015-12-18 15:59:53

Credits: User Richard Marchese Robinson

License: Creative Commons Attribution 3.0 Unported License

The files hosted here are Excel-based templates for the creation of ISA-TAB-Nano datasets [https://wiki.nci.nih.gov/display/ICR/ISA-TAB-Nano] which were developed within the context of the NanoPUZZLES EU project [http://www.nanopuzzles.eu/]. (Up to date information on ISA-TAB-Nano can be found here: https://wiki.nci.nih.gov/display/ICR/ISA-TAB-Nano ISA-TAB-Nano is a derivative of ISA-TAB, for which further information may be found here: http://www.isa-tools.org/format/specification/)The resea...

File type: application/x-zip-compressed

Comments: 0 | Viewed: 283 times | Downloaded: 56 times

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KNIME
Uploader
4267?size=60x60 Barbara Zdrazil

Workflow Use Case B, KNIME workflow (1)

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Workflow used to obtain data for the research paper ‘The application of the Open Pharmacological Concepts Triple Store (Open PHACTS) to support Drug Discovery Research’, PLoS One. 2014 Dec 18; 9(12):e115460. PMID: 25522365; authored by Joseline Ratnam, Barbara Zdrazil, Daniela Digles, Cuadrado-Rodriguez E, et al. This workflow can be used to retrieve data and perform the analysis described in use case BRequirements:- Knime v2.9- Open PHACTS Knime nodes version 1.0.0 (DON'...

Created: 2014-11-20 | Last updated: 2015-11-03

Credits: User Barbara Zdrazil User Emiliano Cuadrado User Daniela Digles User Lars Richter Network-member Open PHACTS

Creator
4185?size=60x60 Nl Eleni
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Pack 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. 

5 items in this pack

Comments: 0 | Viewed: 245 times | Downloaded: 12 times

This Pack has no tags!

Uploader
4562?size=60x60 Nl Maria Paula Balcazar-Vargas
Project Biovel
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Blob Integral Projection Model documentation

Created: 2013-08-13 13:22:56 | Last updated: 2014-07-04 12:20:25

Credits: User Maria Paula Balcazar-Vargas User Jon Giddy User Gerard Oostermeijer

Attributions: Workflow Integral Projection Model for Demographic Modelling v34 Blob Demographic data Cryptantha flava

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This documentation (tutorial to run the workflow) explains how to run a workflow that belongs to the pack with same name.The Integral Projection Model Workflow provides an environment for create an integral projection model and to calculate its population growth, structure, sensitivities and elasticities analyses, age-specific metrics, etc.Create an IPM with no density dependence and perform several analyses on it.Analyses:Lambda (λ).Sensitivity analysis.Elasticity analysis.Parameters ...

File type: Adobe PDF

Comments: 0 | Viewed: 201 times | Downloaded: 124 times

Tags:
KNIME
Uploader
Avatar Au sauberns

Workflow Indigo-pains-recursive (2)

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*** Update 20151130 - using KNIME 3 nodes and the 'RDKit' version of PAINS queries ***The old Indigo library (1.1.13) could not take advantage of the parallelizing nodes in KNIME the way the RDKit library could. One way to speed up the PAINS workflow when using the Indigo library was to use a recursive loop that constantly shrank the list of structures being presented to the next PAINS query as structures were knocked out of the main list.Using the WEHI-10k reference set (embedded in ...

Created: 2013-08-13 | Last updated: 2015-12-01

Credits: User sauberns

Attributions: Workflow Indigo-pains Workflow RDKit-pains-parallel

Taverna 2
Uploader
3194?size=60x60 Hu Ferenc HORVATH
Project Biovel

Workflow Biome-BGC ESI version 1.4.1 (3)

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Biome-BGC is a process-based biogeochemical model that can be used to simulate carbon, nitrogen and water fluxes of different terrestrial ecosystems. The model can help us to quantify a broad range of ecosystem service indicators. These newly developed measures include: annual wood increment, yearly production of grasslands or croplands, total average carbon stock, annual evapotranspiration, damping of ecosystem daily water outflow, living and dead biomass protecting the soil against erosion,...

Created: 2013-08-12 | Last updated: 2014-10-04

Credits: User Ferenc HORVATH User Dora Krasser User Peter Ittzes Network-member BioVeL

Taverna 2
Uploader
3375?size=60x60 It Saverio Vicario
Project Biovel

Workflow Partitioning environmental sequencing data... (5)

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Partitioning environmental sequencing data using categorical and phylogenetic information using PhyloH . The WF need a tree in newick format, a samplefile that show the where the leaf of the tree are found in the different sample and how many time, and a grouping file where the different sample are grouped using a categorical variable. The WF gives back a tabular and graphical representation of an entropy based partitioning of the information present in the sequence across the groupings, and ...

Created: 2013-05-07 | Last updated: 2015-06-12

Credits: User Saverio Vicario

Creator
2602?size=60x60 Es Jose Enrique Ruiz
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Pack 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

Comments: 1 | Viewed: 177 times | Downloaded: 33 times

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Creator
9?size=60x60 Gb Stian Soiland-Reyes
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Pack 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...

11 items in this pack

Comments: 0 | Viewed: 109 times | Downloaded: 24 times

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Taverna 2
Uploader
4196?size=60x60 Biodiversity eLaboratory
Project Biovel

Workflow Matrix Population Model construction and a... (2)

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This workflow is deprecated. To obtain a more recent version of this workflow, please refer to: http://www.myexperiment.org/packs/483.html For historic access to this workflow, please view an earlier version.

Created: 2012-11-02 | Last updated: 2014-09-17

Credits: User Jon Giddy User Maria Paula Balcazar-Vargas User Gerard Oostermeijer

Taverna 2
Uploader
4196?size=60x60 Biodiversity eLaboratory
Project Biovel

Workflow Matrix Population Model construction and a... (3)

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This workflow is deprecated. To obtain a more recent version of this workflow, please refer to: http://www.myexperiment.org/packs/483.html For historic access to this workflow, please view an earlier version.

Created: 2012-11-02 | Last updated: 2014-09-17

Credits: User Jon Giddy User Gerard Oostermeijer User Maria Paula Balcazar-Vargas

RapidMiner
Uploader
2640?size=60x60 Pl Mikolaj Morzy

Workflow Uczenie z macierza kosztow (1)

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Przeplyw pokazuje wykorzystanie operatora MetaCost, umozliwiajacego wprowadzenie macierzy kosztow do procesu uczenia klasyfikatora na przykladzie naiwnego klasyfikatora Bayesa.

Created: 2011-05-25 | Last updated: 2014-03-23

RapidMiner
Uploader
2640?size=60x60 Pl Mikolaj Morzy

Workflow Algorytmy k-Means i k-Medoids (1)

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Przeplyw pokazuje zastosowanie algorytmow k-Means i k-Medoids do przeprowadzenia analizy skupien. Analizie podlega zbiór danych Iris, przy czym oryginalne dane zostaly przetransformowane z przestrzeni 4-wymiarowej do przestrzeni 2-wymiarowej za pomoca operatora Singular Value Decomposition. Redukcja liczby wymiarow ma na celu uproszczenie wizualizacji wynikowych modeli.

Created: 2011-05-11 | Last updated: 2013-08-19

RapidMiner
Uploader
2640?size=60x60 Pl Mikolaj Morzy

Workflow Odkrywanie regul asocjacyjnych za pomoca a... (1)

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Workflow pokazuje sposób wykorzystania operatorow Apriori i PredictiveApriori (z narzedzia Weka) do odkrywania regul‚ asocjacyjnych. Operator Set Role zostal wykorzystany do tego, aby atrybut Play (który w oryginale jest zmienna celu) byl potraktowany jak zwyczajny atrybut.

Created: 2011-03-31 | Last updated: 2013-05-30

Creator
2628?size=60x60 Hr Matko Bošnjak
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Pack 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.

6 items in this pack

Comments: 0 | Viewed: 304 times | Downloaded: 162 times

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Taverna 2
Uploader
71?size=60x60 Nl Katy Wolstencroft

Workflow BiomartAndEMBOSSDisease (4)

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This workflow retrieves all genes on human chromosome 22 that are associated with a disease and aligns the upstream regions with mouse and rat homologues. The alignments are plotted and corresponding sequence ids are also returned. Using Biomart and EMBOSS soaplab services, This workflow retrieves a number of sequences from 3 species: mouse, human, rat; align them, and returns a plot of the alignment result. Corresponding sequence ids are also returned.

Created: 2011-01-27 | Last updated: 2012-09-04

Credits: User Katy Wolstencroft User Alan Williams

Attributions: Workflow BiomartAndEMBOSSAnalysis

Taverna 2
Uploader
394?size=60x60 Gb Hamish McWilliam

Workflow EMBL-EBI ClustalW2 (SOAP) (1)

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Perform a ClustalW2 alignment using the EMBL-EBI’s ClustalW2 (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/msa/clustalw2_soap).

Created: 2010-12-06 | Last updated: 2013-03-28

Attributions: Workflow EBI_ClustalW2

Taverna 2
Uploader
1217?size=60x60 Gb Alan Williams

Workflow A Basic example R workflow (3)

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This workflow uses an R service running on localhost to calculate sin(0.45)

Created: 2010-11-26 | Last updated: 2014-08-20

Credits: User Alan Williams

Taverna 2
Uploader
510?size=60x60 Us Wei Tan

Workflow genePattern data preprocessing (2)

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preprocess data set using genePattern preProces service, the input should be in genePattern STATML format. Configuration parameters can be adjusted by changing the default preprocess data set using genePattern preProces service, the input should be in genePattern STATML format.preprocess data set using genePattern preProces service, the input should be in genePattern STATML format. Configuration parameters can be adjusted by changing the string constants.

Created: 2010-05-24 | Last updated: 2010-05-24

Credits: User Wei Tan

SPARQL
Uploader
Avatar Se Annsofie Anderssson

Workflow Keyword search against chEMBL (1)

By entergin a keyword to the query this SPARQL query will find targets related to that word. The keyword looks at the provided description about the protein for a match.

Created: 2010-03-24

Credits: User Annsofie Anderssson

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Funded by: BioVeL, EPSRC, JISC, Microsoft

Affiliates: myGrid, Taverna, BioCatalogue
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