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Taverna 2
Uploader
3689?size=60x60 Es Julian Garrido

Workflow Find asteroids in images from CAHA observa... (1)

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It analyzes images from CAFOS instrument in Calar Alto Observatory. It uses SkyBot catalog in order to identify objects in the Solar System. It includes a double check to avoid objets that are not asteroids (comparing with USNO and 2MASS catalogs). The result is a VOTable of asteroids

Created: 2013-07-17

Credits: User Julian Garrido

Attributions:

Uploader
1217?size=60x60 Gb Alan Williams
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Blob Taverna 2.4 Tutorial

Created: 2013-07-17 11:02:49

Credits: User Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A tutorial for designing and executing workflows in Taverna

File type: PowerPoint presentation

Comments: 0 | Viewed: 23 times | Downloaded: 44 times

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Uploader
1217?size=60x60 Gb Alan Williams
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Blob Species names

Created: 2013-07-16 14:55:56 | Last updated: 2013-07-16 14:56:06

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A list of species

File type: Trident (Package)

Comments: 0 | Viewed: 21 times | Downloaded: 11 times

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Creator
1217?size=60x60 Gb Alan Williams
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Pack a


Created: 2013-07-10 13:12:46 | Last updated: 2013-11-14 11:20:52

a

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Taverna 2
Uploader
3505?size=60x60 At Markus Plangg

Workflow Imagemagick convert - tiff2tiff - compression (2)

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Converts tiff to tiff using imagemagick convert with the provided compression

Created: 2013-07-08 | Last updated: 2013-07-08

Credits: User Markus Plangg

Uploader
3689?size=60x60 Es Julian Garrido
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Blob PDL description file for VAMDC collision service

Created: 2013-07-08 13:34:04 | Last updated: 2014-02-10 14:14:31

Credits: User Julian Garrido

License: Creative Commons Attribution-Share Alike 3.0 Unported License

PDL description file for VAMDC collision service

File type: XML

Comments: 0 | Viewed: 15 times | Downloaded: 7 times

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Taverna 2
Uploader
30?size=60x60 Nl Marco Roos

Workflow OPS REST services (1)

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Library of REST services developed for the Open Pharmacological Space (OPS) by the OpenPHACTS project. Usage: 1. Copy-paste a service into your workflow 2. Add an output to responseBody 3. Run the workflow (this will produce output in XML) 4. Copy the XML output 5. Go back to the design window and add the XPath widget to the canvas 6. Link the responseBody output to the XPath widget input 7. Paste the XML output to the example window in the XPath configure window 8. Select the desired eleme...

Created: 2013-07-06

Credits: User Marco Roos Network-member Open PHACTS

Taverna 2
Uploader
3961?size=60x60 Eelke van der Horst

Workflow Find pathways in which two genes co-occur ... (1)

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This workflow finds all pathways in which two gene symbols co-occur. This workflow was created as an exercise for the "Managing and Integrating Information in the Life Sciences course 2013" at the LUMC, which is organized by the Netherlands Bioinformatics Center (NBIC).

Created: 2013-06-28 | Last updated: 2013-06-28

Taverna 2
Uploader
360?size=60x60 Ian Dunlop

Workflow Free text search to Concept Wiki URI (4)

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Free text search of concept wiki using the Openphacts "Map free text to a concept url based on semantic tag" ie /search/byTag. Search for either compounds or targets depending on the input uuid for "searchType" and filter by source authority with the "branch" input

Created: 2013-06-24 | Last updated: 2013-06-24

Credits: User Ian Dunlop User Katy Wolstencroft User Marco Roos User paul groth

Taverna 2
Uploader
Avatar Rudolf Mayer

Workflow MusicClassificationExperiment (1)

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Performs a scientific experiment of classifying music into genres

Created: 2013-06-20

Credits: User Rudolf Mayer

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Avatar pinarpink
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Blob Big Data paper supplementary material ZIP archive

Created: 2013-06-19 07:44:10

Credits: User pinarpink

License: Creative Commons Attribution-Share Alike 3.0 Unported License

d

File type: ZIP archive

Comments: 0 | Viewed: 26 times | Downloaded: 13 times

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Pack Big Data 2013 Paper Supplementary Material


Created: 2013-06-19 07:40:14 | Last updated: 2013-06-19 07:44:43

The zip file contains the datasets used for the evaluation of  our BigData paper "Pinar Alper, Khalid Belhajjame, Carole Goble, and Pinar Karagoz. Small is beautiful: Summarizing scientific workflows using semantic an- notations. In Proceedings of the IEEE 2nd International Congress on Big Data (BigData 2013), Santa Clara, CA, USA, June 2013."

1 item in this pack

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Taverna 2
Uploader
30?size=60x60 Nl Marco Roos

Workflow OPS_FreetextToTargetInfo (1)

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Workflow to retrieve target information for the concepts as refered to by humans (the input). Known issues: It produces error values for the concepts returned by ConceptWiki that are apparently not present in OPS (e.g. for "ezh2" and limit=10, it gives 7/10 error values vs "ezh2 (homo sapiens)" giving 2 valid values).

Created: 2013-06-18

Credits: User Marco Roos User Katy Wolstencroft User paul groth

Uploader
Avatar My Mohd Saberi
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Blob A Method To Construct Gene Regulatory Networks To Es...

Created: 2013-06-10 06:56:01

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

S.P. Chai, M.S. Mohamad. A Method To Construct Gene Regulatory Networks To Estimate and Calculate Time Delay. (2013). Jurnal Teknologi. Vol. 62, No. 1, pp. 25-31. UTM Press. Indexed by SCOPUS. 

File type: Adobe PDF

Comments: 0 | Viewed: 24 times | Downloaded: 28 times

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

Workflow Biome-BGC MCE 1.4.1 (4)

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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. Two models were implemented: Biome-BGC 4.1.1 MPI (Trusilova et al. 2009) and Biome-BGC MuSo 3.0 (Hidy & Barcza 2014). Its has about 40 and 60 various parameters. The only way to estimate or set these parameters is "calibration" (data-model-harmonization or model-data-fusion), which demands a hugh amount of computational capacity. Monte Carlo Exp...

Created: 2013-06-04 | Last updated: 2014-10-04

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

Taverna 2
Uploader
1730?size=60x60 De cneudecker

Workflow Fraunhofer IAIS mydec (4)

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This workflow is provided by the Succeed EU project. For more information about Succeed, please visit http://succeed-project.eu/. For more information about mydec, please visit http://www.iais.fraunhofer.de/mydec.html

Created: 2013-06-04 | Last updated: 2014-02-07

Credits: User cneudecker

Uploader
Avatar My Mohd Saberi
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Blob Identifying Minimal Genomes and Essential Genes in M...

Created: 2013-05-31 03:04:59

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

A.H.M. Salleh, M. S. Mohamad, S. Deris, R. M. Illias, “Identifying Minimal Genomes and Essential Genes in Metabolic Model Using Flux Balance Analysis”, The 5th Asian Conference on Intelligent Information and Database Systems (ACIIDS 2013), Istana Hotel, Kuala Lumpur, Malaysia, 18-20 March, 2013

File type: Adobe PDF

Comments: 0 | Viewed: 29 times | Downloaded: 18 times

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Avatar My Mohd Saberi
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Blob Multiple Gene Sets for Cancer Classification Using G...

Created: 2013-05-31 03:04:30

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

K. Moorthy, M.S. Mohamad, S. Deris, “Multiple Gene Sets for Cancer Classification Using Gene Range Selection Based on Random Forest”, The 5th Asian Conference on Intelligent Information and Database Systems (ACIIDS 2013), Istana Hotel, Kuala Lumpur, Malaysia, 18–20 March, 2013. 

File type: Adobe PDF

Comments: 0 | Viewed: 34 times | Downloaded: 14 times

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Avatar My Mohd Saberi
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Blob Using Bees Hill Flux Balance Analysis (BHFBA) for in...

Created: 2013-05-31 03:03:51

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Y. W. Choon, M. S. Mohamad, S. Deris, R. M. Illias, L. E. Chai, “Using Bees Hill Flux Balance Analysis (BHFBA) for in silico Microbial Strain Optimization”, The 5th Asian Conference on Intelligent Information and Database Systems (ACIIDS 2013), Istana Hotel, Kuala Lumpur, Malaysia, 18-20 March, 2013. 

File type: Adobe PDF

Comments: 0 | Viewed: 27 times | Downloaded: 21 times

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Avatar My Mohd Saberi
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Blob A Hybrid of Artificial Bee Colony and Flux Balance A...

Created: 2013-05-31 03:03:16

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

S.S Lee, Y.W. Choon, L.E. Chai, C.K. Chong, S. Deris, R.M. Illias, M.S. Mohamad, “A Hybrid of Artificial Bee Colony and Flux Balance Analysis for Identifying Optimum Knockout Strategies for Producing High Yields of Lactate in Echerichia Coli”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia, 27-28 February 2013. 

File type: Adobe PDF

Comments: 0 | Viewed: 43 times | Downloaded: 18 times

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Avatar My Mohd Saberi
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Blob Identifying Gene Knockout Strategy Using Bees Hill F...

Created: 2013-05-31 03:02:36

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Y.W. Choon, M.S. Mohamad, S. Deris, R.M. Illias, L.E. Chai, C.K. Chong, “Identifying Gene Knockout Strategy Using Bees Hill Flux Balance Analysis (BHFBA) for Improving the Production of Ethanol in Bacillus Subtilis”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

Comments: 0 | Viewed: 32 times | Downloaded: 12 times

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Avatar My Mohd Saberi
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Blob Prediction of Vanillin Production in Yeast Using a H...

Created: 2013-05-31 03:01:58

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

L.H. Yin, Y.W. Choon, L.E. Chai, C.K. Chong, S. Deris, R.M. Illias, M.S. Mohamad, “Prediction of Vanillin Production in Yeast Using a Hybrid of Continuous Bees Algorithm and Flux Balance Analysis (CBAFBA)”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

Comments: 0 | Viewed: 33 times | Downloaded: 13 times

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Blob Inferring Gene Networks from Gene Expression Data Us...

Created: 2013-05-31 03:01:03

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

M.A. Mutalib, L.E. Chai, C.K. Chong, Y.W. Choon, S. Deris, R.M. Illias, M.S. Mohamad, “Inferring Gene Networks from Gene Expression Data Using Dynamic Bayesian Network with Different Scoring Metric Approaches”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Avatar My Mohd Saberi
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Blob Using Particle Swarm Optimization for Estimating Kin...

Created: 2013-05-31 03:00:33

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

S.T. Ng, C.K. Chong, Y.W. Choon, L.E. Chai, S. Deris, R.M. Illias, M.S. Shamsir, M.S. Mohamad, “Using Particle Swarm Optimization for Estimating Kinetics Parameters on Essential Amino Acid Production of Arabidopsis Thaliana”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

Comments: 0 | Viewed: 26 times | Downloaded: 12 times

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Blob Using Ant Colony Optimization (ACO) on Kinetic Model...

Created: 2013-05-31 03:00:05

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

N.F. Saidin, C.K Chong, Y.W. Choon, L.E. Chai, S. Deris, R.M. Illias, M.S Shamsir, M.S. Mohamad, “Using Ant Colony Optimization (ACO) on Kinetic Modeling of the Acetoin Production in Lactococcus Lactis C7”, International Symposium on Biomedical Data Infrastructure (BDI 2013), University of Malaya, Kuala Lumpur, Malaysia,  27-28 February 2013. 

File type: Adobe PDF

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Affiliates: myGrid, Taverna, BioCatalogue
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