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Visualize PAV provenance as SVG (1)

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VoID descriptions are fetched as Turtle, cleaned up to be valid OWL 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 demand, and uses UNIX command line tools like wget and md5 which are unlikely to work in Windows. This workflow has been tested on Ubuntu 12.10 wit...

Created: 2014-05-20

Credits: Peter Li

Hybrid Recommender System Using Linked Op... (1)

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This process is using the Rapid Miner Linked Open Data extension and the Recommender extension, to build a hybrid Linked Open Data enabled recommender system for books.The input data for the process can be found here.More information about the process can be found here.

Created: 2014-05-15 | Last updated: 2014-05-15

Predicting the fuel consumption of cars (1)

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This process is using features extracted from DBpedia to predict the fuel consumption of cars. It uses operators from the Linked Open Data and the Weka extensions.The process first reads a list of cars with the fuel consumption value. The DBpedia lookup linker is used to link the car names to DBpeida resources. The established links are used to generate additional features, i.e. direct types and categories of each car. Finally, a M5 Rules Operator is used to predict the fuel co...

Created: 2014-05-14 | Last updated: 2014-05-15

Fetch Abstracts (1)

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Example how to fetch abstracts using a component that performs SQL queries based on a database properties string.

Created: 2014-05-08

Visualize PAV provenance as SVG (1)

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VoID descriptions are fetched as Turtle, cleaned up to be valid OWL 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 demand, and uses UNIX command line tools like wget and md5 which are unlikely to work in Windows. This workflow has been tested on Ubuntu 12.10 wit...

Created: 2014-05-08

Credits: Katy Wolstencroft Aleksandra Pawlik

getDataPointValueFixedTime by SINP (3)

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Workflow for Taverna based on the IMPEx-FP7 method getDataPointValueFixedTime. The method can be used to return the magnetic field (calculated by SINP paraboloid magnetic field model) in given points inside the planetary magnetosphere and at a fixed time for each point.

Created: 2014-05-07 | Last updated: 2014-05-19

Credits: Manuel Scherf

getDataPointValue by SINP (2)

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Workflow for Taverna based on the IMPEx-FP7 method getDataPointValue. This method is used to compute values of various physical quantitites (e.g. density, magnetic field strengths etc.) for a given simulation run at a user given set of 3D points.

Created: 2014-05-07 | Last updated: 2014-05-20

Credits: Manuel Scherf

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LabelFlow evaluation pack

Created: 2014-05-07 21:08:35

0 items in this pack

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TIF to JP2 file format migration with qual... (1)

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This workflow reads a textfile containing absolute paths to TIF image files and converts them to JP2 image files using OpenJPEG (https://code.google.com/p/openjpeg). Based on the input text file, the workflow creates a Taverna list to be processed file by file. A temporary directory is created (createtmpdir) where the migrated image files and some temporary tool outputs are stored. Before starting the actual migration, it is checked if the TIF input images are valid file format instances u...

Created: 2014-05-07 | Last updated: 2014-05-07

Credits: Sven

Imagemagic image size equals QA (1)

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QA component that extracts the image size of two images and checks if they match

Created: 2014-05-06

Credits: Markus Plangg

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LabVIEW Equivalent of Tutorial 1 Workflow

Created: 2014-05-05 11:39:35

Credits: Magnus Palmblad

Attributions: Tutorial 1 Workflow

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: application/binary

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Get properties from a properties string (1)

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This workflow shows how to get specific properties from a properties string. The properties string has the format: some.key=Some value another.key=Another value

Created: 2014-05-01

Concept Profile Generation Pipeline (9)

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Requirements: Have MySQL installed with a database called mydb or please create one. Have a mysql connector file. This can be downloaded from mysql.com. Rename the downloaded file to mysql-connector-java.jar and place it in the the local lib file of Taverna as written on the dependencies tab. Choose this dependency by rightclicking a beanshell script and selecting it for the whole workflow as system classloader. Download the Peregrine SKOS CLI from: https://trac.nbic.nl/biosemantics/downlo...

Created: 2014-04-30 | Last updated: 2014-06-15

Credits: Amrish Mahes

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TEST file

Created: 2014-04-29 13:21:44

Credits: Stian Soiland-Reyes

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Trident (Package)

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Test pack

Created: 2014-04-29 13:16:38 | Last updated: 2014-04-29 13:17:26

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ARC to WARC Migration and CDX Index Compar... (1)

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Workflow for migrating ARC to WARC and comparing the CDX index files (Linux). The workflow has an input port “input_directory” which is a local path to the directory containing the ARC files, and an input port “output_directory” which is the directory where the workflow outputs are created. The files in the input directory are migrated using the “arc2warc_migration_cli” tool service component to perform the migration. The “cdx_creator_arc” and “cdx_creator_warc” tool service components creat...

Created: 2014-04-23

Credits: Sven

Make Groups for Tutorial (2)

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The workflow pairs people from two groups of equal size into the same number of pairs with one member from each group. This is done randomly, using the random.org randomization engine, which in turn is based on atmospheric radio noise.

Created: 2014-04-16 | Last updated: 2015-10-12

Credits: Magnus Palmblad

Tutorial 1 Workflow (2)

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Fetch and combine transcriptomics and proteomics data from NSC11 cells in GEO and PRIDE respectively. Apply spectral counting on the proteomics data. The workflow demonstrates how to combine data from different domains (here microarray- based transcriptomics and mass spectrometry-based proteomics) and do something useful with the data. The workflow also demonstrates spreadsheet import and XPath parsing of XML data. This workflow is for tutorial/educational use only. The cells were not grown...

Created: 2014-04-16 | Last updated: 2014-04-16

Credits: Magnus Palmblad

Tutorial_1_start (1)

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This partial workflow is the starting point for Taverna tutorial held at the Leiden University Medical Center on April 17, 2014.

Created: 2014-04-16

Credits: Magnus Palmblad

MassCascade (nightly): Metabolic differenc... (1)

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Data processing workflow for metabolomics LC-MS/MS data. This workflow depends on the nightly community plug-in MassCascade and KNIME plug-ins Base Chemistry, Chemistry Types & Nodes, Math Expression, R Integration, and XLS Support. Obiwarp and a Fraggraph are required external dependencies. The workflow was run under KNIME version 2.9.2.

Created: 2014-04-15

Credits: SBeisken

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Starter Pack CommandLine Testing bat file

Created: 2014-04-10 16:27:27 | Last updated: 2014-04-16 13:05:13

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Trident (Package)

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AstroTaverna Starter Pack CommandLine Testing bat file

Created: 2014-04-10 16:16:34 | Last updated: 2014-04-16 13:06:55

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Trident (Package)

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Table format coversion: ASCII to VOTable Example Input

Created: 2014-04-10 15:06:40

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Coordinate units conversion Example Input

Created: 2014-04-10 14:47:59

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Joins two VOTables with the same numer of rows into ...

Created: 2014-04-10 14:16:19

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Joins two VOTables with the same numer of rows into ...

Created: 2014-04-10 14:16:13

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Extract a column from a VOTable into a List example ...

Created: 2014-04-10 14:01:29

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Cocatenates several VOTables into one votable1 examp...

Created: 2014-04-10 13:34:08

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Cocatenates several VOTables example value for votable2

Created: 2014-04-10 13:33:57

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Cocatenates several VOTables example value for votable3

Created: 2014-04-10 13:33:33

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Cocatenates several VOTables example value for votable4

Created: 2014-04-10 13:33:17

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Select columns from VOTable Example Input Value

Created: 2014-04-10 12:48:14 | Last updated: 2014-04-10 13:10:26

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Transformation of reference coordinate system Exampl...

Created: 2014-04-10 12:34:41

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Add a common row to a VOTable MainVOTable example V...

Created: 2014-04-10 12:21:17

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Add a common row to a VOTable CommonRow Example Values

Created: 2014-04-10 12:15:29

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Perform Multi-ConeSearch queries to a VO Service Ex...

Created: 2014-04-10 11:59:12

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Perform Multi-SSA queries to an Spectral VO Service ...

Created: 2014-04-10 10:25:22 | Last updated: 2014-04-10 11:18:14

Credits: Christian

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Workflow of IFC data collection, crowd mod... (3)

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Simulation workflow for crowd modeling in building. could perform CAD data collection, crowd modeling and simulation, results parsing for 3D visualization. This workflow cannot be executed due to local tools dependancies. This workflow is working in process, we will deploy local tools as services and they will be acessable for anyone.

Created: 2014-04-09 | Last updated: 2014-06-24