About | Mailing List | Publications

Give us Feedback |

Invite

Home
»
Tags
»
taverna

Tag Results

Items tagged with "taverna" (54)

Note: some items may not be visible to you, due to viewing permissions.

Workflows (38)

Taverna 1 Original Uploader Alan Williams	Example of a conditional execution workflow (v1) Created: 05/03/08 @ 13:55:45 \| Last updated: 23/05/12 @ 11:18:50 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License If the input is true then the string 'foo' is emited, if false then 'bar'. Just a simple example to show how the monster works, so to speak. Note that this type of workflow is not suitable for Taverna 2. An alternative mechanism is recommended. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 1 \| Citations: 0 Viewed: 1601 times \| Downloaded: 471 times Tags (5): condition \| design pattern \| example \| mygrid \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	BiomartAndEMBOSSAnalysis (v4) Created: 15/09/09 @ 15:11:11 License: Creative Commons Attribution 3.0 Unported License 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. Rating: 0.0 / 5 (0 ratings) \| Versions: 4 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 1157 times \| Downloaded: 391 times Tags (6): bioinformatics \| biomart \| emboss \| example \| mygrid \| taverna	View Download (v4)
Taverna 1 Original Uploader Alan Williams	A workflow version of the EMBOSS tutorial (v1) Created: 05/03/08 @ 14:05:20 \| Last updated: 25/03/08 @ 14:43:35 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 393 times \| Downloaded: 136 times Tags (4): emboss \| example \| mygrid \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fetch today's xkcd comic (v1) Created: 05/03/08 @ 14:08:52 \| Last updated: 07/04/08 @ 13:54:04 Credits: Tomoinn Stian Soiland-Reyes Attributions: License: Creative Commons Attribution 3.0 Unported License Use the local java plugins and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow. Rating: 4.5 / 5 (2 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 488 times \| Downloaded: 179 times Tags (4): example \| mygrid \| taverna \| xkcd	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Fetch Dragon images from BioMoby (v3) Created: 05/03/08 @ 14:09:35 \| Last updated: 14/07/10 @ 16:46:37 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Fetch images and annotations of snapdragons Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 305 times \| Downloaded: 108 times Tags (8): annotation \| bioinformatics \| biomoby \| example \| image \| mygrid \| snapdragon \| taverna	View Download (v3)
Taverna 1 Original Uploader Alan Williams	Demonstration of configurable iteration (v1) Created: 05/03/08 @ 14:10:51 \| Last updated: 25/03/08 @ 14:40:27 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration. Rating: 4.0 / 5 (1 rating) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 276 times \| Downloaded: 153 times Tags (5): design pattern \| example \| iteration \| mygrid \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	Retrieve sequence in EMBL format (v3) Created: 17/06/09 @ 16:51:32 Credits: Franck Tanoh Tomoinn Stuart Owen License: Creative Commons Attribution 3.0 Unported License This workflow retrieves a sequence associated with its features in embl format Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 307 times \| Downloaded: 100 times Tags (8): bioinformatics \| example \| mygrid \| rendering \| retrieval \| sequence \| soaplab \| taverna	View Download (v3)
Taverna 1 Original Uploader Alan Williams	Fetch PDB flatfile from RCSB server (v1) Created: 05/03/08 @ 14:13:24 \| Last updated: 31/03/08 @ 16:01:41 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Given an identifier such as '1crn' fetches the PDB format flatfile and returns the corresponding 3D image of the protein. Rating: 3.0 / 5 (1 rating) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 288 times \| Downloaded: 109 times Tags (8): bioinformatics \| example \| mygrid \| pdb \| protein \| protein structure \| rcsb \| taverna	View Download (v1)
Taverna 1 Original Uploader Alan Williams	GBSeq test (v2) Created: 05/03/08 @ 14:15:35 \| Last updated: 31/03/08 @ 15:55:09 Credits: Franck Tanoh License: Creative Commons Attribution 3.0 Unported License This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 241 times \| Downloaded: 90 times Tags (9): bioinformatics \| example \| mygrid \| ncbi \| nucleotide \| protein \| retrieval \| shim \| taverna	View Download (v2)
Taverna 1 Original Uploader Stian Soiland-Reyes	Staged iteration strategy (v1) Created: 07/05/08 @ 12:10:27 \| Last updated: 07/05/08 @ 12:32:36 Credits: Stian Soiland-Reyes License: Creative Commons Attribution-Share Alike 3.0 Unported License Consider two lists A and B, of equal size 3. A[1] corresponds to B[1], A[2] to B[2], etc, for instance A are image scans from 2007 and B from 2008, and the index indicates the patient number. A = [a0, a1, a2] B = [b0, b1, b2] There's then two lists of possible parameters P and Q, of different lengths, P has 2 and Q has 4 items. P = [p0, p1] Q = [q0, q1, q2, q3] Each of the A items should be processed in ap using each of the P parameters, and each of the B items ... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 75 times \| Downloaded: 46 times Tags (7): crossproduct \| dotproduct \| example \| iteration \| staged \| strategy \| taverna	View Download (v1)
Taverna 1 Original Uploader Wassinki	Analysing workflows (v3) Created: 06/05/09 @ 08:49:59 \| Last updated: 06/05/09 @ 08:50:29 Credits: Wassinki Pieter Neerincx Katy Wolstencroft Marco Roos License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflows analyses workflows stored at the myExperiment site. It is used in the paper submitted to the Workshop on Scientific Workflow 2009. The workflow shows the task usage in the Taverna workflows stored at the myExperiment site The amount of services used The amount of local processors used The amount of scripting tasks The amount of sub workflows Furthermore it classifies the local services based on their intended function. The workflow has two inputs: ... Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 163 times \| Downloaded: 62 times Tags (9): analysis \| beanshell \| localworker \| moby \| myexperiment \| rshell \| scripting \| taverna \| web services	View Download (v3)
Taverna 2 Original Uploader Ruben	Example 3 (v1) Created: 20/10/09 @ 17:00:59 Credits: Ruben License: Creative Commons Attribution-Share Alike 3.0 Unported License Search in the Datenbank SWISS the Sequence 1220173 Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 76 times \| Downloaded: 29 times Tags (5): database \| FASTA \| in \| introduction \| taverna	View Download (v1)
Taverna 1 Original Uploader Stian Soiland-Reyes	Find/show Taverna's home directory (v1) Created: 12/04/10 @ 15:11:47 \| Last updated: 12/04/10 @ 15:17:57 Credits: Stian Soiland-Reyes License: Creative Commons Attribution-Share Alike 3.0 Unported License Find Taverna's home directory and open that folder using Explorer/Finder/Gnome. This is the folder that is typically something like C:\Users\stain\AppData\Roaming\taverna-2.1.2, C:\Documents and settings\stain\taverna-2.1.2, /home/stain/.taverna-2.1.2 or /Users/stain/Library/Application support/taverna-2.1.2 This workflow should work on both Taverna 1 and Taverna 2. For Taverna 2 the beanshell script uses reflection to try to call ApplicationRuntime.getInstance().getApplicationHome() ... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 18 times \| Downloaded: 12 times Tags (3): commandline \| folder \| taverna	View Download (v1)
Taverna 2 Original Uploader Nadia Cerezo	Get KEGG gene descriptions and pathways (v1) Created: 30/04/10 @ 16:09:29 \| Last updated: 30/04/10 @ 16:12:02 Credits: Nadia Cerezo Paul Fisher Attributions: Get Kegg Gene information License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow takes a list of KEGG gene identifiers and supplies descriptions associated to said genes + pathways including all genes and the descriptions associated to said pathways. The list_to_string local beanshell scripts merely transform a given list into a string of unique not-null elements separated by new lines (for batch btit use). Note that the input is a real taverna list : multiple values must be declared as multiple values instead of a single string value with distinct identif... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 393 times \| Downloaded: 25 times Tags (11): gene \| gene identifier \| genes \| information \| kegg \| Kegg Pathways \| KeggID \| pathway \| pathways \| taverna \| workflow	View Download (v1)
Taverna 1 Original Uploader Barbera van Schaik	Sff2Fasta_Blast_ParseBlast (v1) Created: 22/09/10 @ 12:40:55 \| Last updated: 22/09/10 @ 13:35:26 Credits: Barbera van Schaik Antoine van Kampen Angela Luijf Silvia Olabarriaga License: Creative Commons Attribution-Share Alike 3.0 Unported License Blast Roche 454 sequences against a reference database on the Dutch Life Science Grid Conversion of Roche 454 sequences to fasta Blast sequences against a database Parse Blast results http://www.bioinformaticslaboratory.nl/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 30 times \| Downloaded: 15 times Tags (9): alignment \| BLAST \| conversion \| DNA \| grid \| moteur \| sequence \| taverna \| vbrowser	View Download (v1)
Taverna 1 Original Uploader Barbera van Schaik	Sff2Fasta_Blat (v1) Created: 22/09/10 @ 13:18:55 \| Last updated: 22/09/10 @ 13:35:49 Credits: Barbera van Schaik Antoine van Kampen Angela Luijf Silvia Olabarriaga License: Creative Commons Attribution-Share Alike 3.0 Unported License Blat Roche 454 sequences against a reference database on the Dutch Life Science Grid Conversion of Roche 454 sequences to fasta Blat sequences against a database http://www.bioinformaticslaboratory.nl/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 17 times \| Downloaded: 14 times Tags (9): alignment \| blat \| conversion \| DNA \| grid \| moteur \| sequence \| taverna \| vbrowser	View Download (v1)
Taverna 1 Original Uploader Barbera van Schaik	Sff2Fasta_Blast_Blat_ParseBlast (v1) Created: 22/09/10 @ 13:22:57 \| Last updated: 22/09/10 @ 13:36:12 Credits: Barbera van Schaik Antoine van Kampen Angela Luijf Silvia Olabarriaga License: Creative Commons Attribution-Share Alike 3.0 Unported License Blast and Blat Roche 454 sequences against a reference database on the Dutch Life Science Grid Conversion of Roche 454 sequences to fasta Blat sequences against a database Blast sequences against a database Parse Blast results http://www.bioinformaticslaboratory.nl/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 31 times \| Downloaded: 17 times Tags (10): alignment \| BLAST \| blat \| conversion \| DNA \| grid \| moteur \| sequence \| taverna \| vbrowser	View Download (v1)
Taverna 2 Original Uploader Dennis Leenheer	[untitled] (v1) Created: 26/04/11 @ 14:50:37 \| Last updated: 26/04/11 @ 15:04:28 Credits: Dennis Leenheer License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow allows the user to search for processes that are involved with a certain gene. Using microarray-files (CEL-files), consisting of wild type and KO mice to which a stimulant is induced, the user can get an idea of the processes involved. (This is done using the global test and the literature weighted global test.) The results are then given as a text-file. Warning: workflow is not working (needs some revisions), all input is currently hardcoded! (You will have to change the file... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 9 times Tags (16): bioinformatics \| biosemantics \| datamining \| global test \| GO \| kegg \| literature weighted global test \| mapping \| normalization \| rma \| sommation \| taverna \| taverna 2 \| textmining \| weighted global test \| workflow	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BiomartAndEMBOSSDisease (v2) Created: 12/07/11 @ 12:54:05 \| Last updated: 19/03/12 @ 15:31:14 Credits: Katy Wolstencroft Attributions: BiomartAndEMBOSSAnalysis License: Creative Commons Attribution 3.0 Unported License 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. Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 12 times Tags (4): biomart \| emboss \| example \| taverna	View Download (v2)
Taverna 2 Original Uploader Alan Williams	EBI_InterproScan_NewServices (v1) Created: 12/07/11 @ 13:02:49 \| Last updated: 12/07/11 @ 13:02:50 Credits: Alan Williams Katy Wolstencroft Attributions: EBI_InterproScan_NewServices License: Creative Commons Attribution 3.0 Unported License This workflow performs an interproscan at the EBI on sequences provided as input. The output is provided as text, xml or png. This workflow uses the new EBI services, which are asynchronous and require looping over the nested workflow (Status) until the workflow has finished. Many of the EBI services now work in this way, so you can use this workflow as an example of the invocation pattern and looping configuration. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 14 times \| Downloaded: 8 times Tags (3): example \| looping \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Example workflow for REST and XPath activities (v1) Created: 12/07/11 @ 13:07:58 \| Last updated: 12/07/11 @ 13:07:59 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License This workflow fetches weather forecast for the user-specified location. First of all it uses the provided location name to obtain a WOEID ("Where On Earth ID") of that location, then uses that unique identifier to fetch the weather forecast from Yahoo server. Multiple results may be obtained in case there is no unique translation of the location to a WOEID. REST activity is used to perform HTTP requests and fetch data from remote servers; XPath activity is then used to parse the XML data a... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 13 times Tags (3): example \| rest \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Multiple choice quiz (v1) Created: 12/07/11 @ 13:46:40 \| Last updated: 12/07/11 @ 13:46:42 Credits: Alan Williams George Attributions: Multiple choice quiz License: Creative Commons Attribution 3.0 Unported License A fun example workflow showing user-interaction and service looping Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 12 times \| Downloaded: 10 times Tags (4): example \| looping \| quiz \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch Dragon images from BioMoby (v1) Created: 12/07/11 @ 13:52:04 \| Last updated: 12/07/11 @ 13:52:05 Credits: Tomoinn License: Creative Commons Attribution 3.0 Unported License Fetch images and annotations of snapdragons Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 6 times Tags (3): biomoby \| example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Spreadsheet Import Example (v1) Created: 12/07/11 @ 13:57:34 \| Last updated: 12/07/11 @ 13:57:36 Credits: David Withers Attributions: Spreadsheed Data Import Example License: Creative Commons Attribution 3.0 Unported License Example using the SpreadsheetImport service to import data from an Excel spreadsheet. The workflow imports the file spreadsheet file WaterUse.xlsx and generates a graph from the date. The source data is from http://data.gov.uk/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 21 times \| Downloaded: 25 times Tags (3): example \| spreadsheet \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Retrieve sequence in EMBL format (v1) Created: 12/07/11 @ 14:01:17 \| Last updated: 12/07/11 @ 14:01:18 Credits: Franck Tanoh Attributions: Retrieve sequence in EMBL format License: Creative Commons Attribution 3.0 Unported License This workflow retrieves a sequence associated with its features in embl format Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 5 times \| Downloaded: 11 times Tags (3): example \| soaplab \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Pipelined list iteration (v1) Created: 12/07/11 @ 14:04:39 \| Last updated: 12/07/11 @ 14:04:41 Credits: Ian Dunlop Stian Soiland-Reyes Attributions: Pipelined list iteration License: Creative Commons Attribution 3.0 Unported License Perform multiple iterations of services in order to show pipelining Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 7 times \| Downloaded: 5 times Tags (3): example \| iteration \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	GBSeq test (v1) Created: 12/07/11 @ 14:08:40 \| Last updated: 12/07/11 @ 14:08:41 Credits: Franck Tanoh Attributions: GBSeq test License: Creative Commons Attribution 3.0 Unported License This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 7 times \| Downloaded: 5 times Tags (2): example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch today's xkcd comic (v1) Created: 12/07/11 @ 14:13:35 \| Last updated: 12/07/11 @ 14:13:36 Credits: Tomoinn Stian Soiland-Reyes Attributions: Fetch today's xkcd comic License: Creative Commons Attribution 3.0 Unported License Use the local services and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 30 times \| Downloaded: 16 times Tags (4): example \| localworker \| taverna \| xkcd	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Fetch PDB flatfile from RCSB server (v1) Created: 12/07/11 @ 14:37:08 \| Last updated: 12/07/11 @ 14:37:10 Credits: Alan Williams Tomoinn License: Creative Commons Attribution 3.0 Unported License Given an identifier such as '1crn' fetches the PDB format flatfile from the RCSB Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 20 times \| Downloaded: 9 times Tags (3): example \| rcsb \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Demonstration of configurable iteration (v1) Created: 12/07/11 @ 14:40:22 \| Last updated: 12/07/11 @ 14:40:24 Credits: Alan Williams Tomoinn License: Creative Commons Attribution 3.0 Unported License This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 11 times \| Downloaded: 3 times Tags (3): example \| iteration \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	BioMoby tutorial workflow (v1) Created: 12/07/11 @ 15:50:21 \| Last updated: 12/07/11 @ 15:50:22 Credits: EdwardKawas License: Creative Commons Attribution 3.0 Unported License A workflow from part of the BioMoby tutorial Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 9 times Tags (3): biomoby \| example \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	A workflow version of the EMBOSS tutorial (v1) Created: 12/07/11 @ 15:55:06 \| Last updated: 12/07/11 @ 15:55:08 Credits: Tomoinn Attributions: A workflow version of the EMBOSS tutorial License: Creative Commons Attribution 3.0 Unported License Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 7 times Tags (3): example \| soaplab \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Unix tool service using string replacement (v1) Created: 13/07/11 @ 10:19:35 \| Last updated: 13/07/11 @ 10:19:37 Credits: Alan Williams License: Creative Commons Attribution 3.0 Unported License The tool service outputs a message that greets using the names specified on Greet's input ports. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 10 times \| Downloaded: 7 times Tags (3): example \| taverna \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Unix tools with zip, unzip and diff (v1) Created: 13/07/11 @ 10:21:10 \| Last updated: 13/07/11 @ 10:22:52 Credits: Alan Williams Steffen Möller Attributions: Example for external tools with gzip and gunzip License: Creative Commons Attribution 3.0 Unported License This workflow only works on a Unix machine. This workflow takes a fixed URL from which a text file is downloaded (output as Original_file). That file is zipped (output as Zipped_File) and then unzipped again (output as Unzipped_File). The orginal file and the unzipped version are then diff'd/ Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 15 times \| Downloaded: 26 times Tags (3): example \| taverna \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Unix tool for numerically adding two values. (v1) Created: 13/07/11 @ 10:24:40 \| Last updated: 13/07/11 @ 10:25:37 Credits: Alan Williams Steffen Möller License: Creative Commons Attribution 3.0 Unported License This workflow relies on a Unix system. It wraps the "bc" command line calculator. It downloads the calculation script from a URL. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 12 times Tags (3): example \| taverna \| tool service	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Secure REST service call example (v1) Created: 14/07/11 @ 15:01:03 \| Last updated: 14/07/11 @ 15:01:05 Credits: Alex Nenadic License: Creative Commons Attribution 3.0 Unported License This is an example of a workflow that contains a call to a secure REST service that requires user to authenticate with HTTP Basic Authentication. You can use testuser/testpasswd as username and password for authentication when running the workflow. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 24 times \| Downloaded: 17 times Tags (4): example \| rest \| secure services \| taverna	View Download (v1)
Taverna 2 Original Uploader Alan Williams	Secure Web service call example (v1) Created: 14/07/11 @ 15:02:36 \| Last updated: 14/07/11 @ 15:02:38 Credits: Alex Nenadic License: Creative Commons Attribution 3.0 Unported License This is an example of a workflow that contains a call to a secure Web service that runs behind HTTPS and requires user to authenticate. The first thing you can expect to see is a pop up dialog asking if you trust the Web service to be invoked over HTTPS. You can use testuser/testpasswd as username and password for authentication when running the workflow. To see where the security is being configured, right-click the service in the diagram and select "Configure security" from the menu. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 30 times \| Downloaded: 14 times Tags (3): example \| secure services \| taverna	View Download (v1)
Taverna 2 Original Uploader Helen Hulme	Example of Execute_SQL_Query with parameters (v1) Created: 16/03/12 @ 14:12:35 \| Last updated: 16/03/12 @ 14:16:18 Credits: Helen Hulme License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow connects to a mysql on localhost, queries the "world" database which is one of the test databases on MySQL 5.5, queries it about which countries have Dutch as a language, and emits answers in both Lists and in xml. This workflow is intended as an example to help you see the syntax for the various inputs to this local service beanshell. see: http://www.mygrid.org.uk/dev/wiki/display/taverna/Execute+SQL+Query for instructions on jars, dependencies etc. The jar used he... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 16 times \| Downloaded: 5 times Tags (9): beanshell \| database \| example \| execute_sql_query \| jdbc \| localworker \| mysql \| sql \| taverna	View Download (v1)

Packs (2)

Creator:

Jiten Bhagat

Everything You Need To Know About myExperiment...

Created: 02/07/08 @ 22:31:12 | Last updated: 02/07/08 @ 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!

9 items in this pack

Comments: 0 | Viewed: 246 times | Downloaded: 48 times

Tags:

View

Download

Creator:

David De Roure

Carole's Keynotes

Created: 27/09/08 @ 19:52:17 | Last updated: 08/05/10 @ 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

5 items in this pack

Comments: 0 | Viewed: 108 times | Downloaded: 27 times

Tags:

View

Download

Groups (7)

Administrator: Alan Williams	myGrid Unique name: myGrid Created: Friday 30 November 2007 @ 12:19:26 (GMT) People working or contributing to the myGrid project, including the Taverna developers. You do not need to join this group to see the shared items. If you are interested in contributing to myGrid or Taverna development or have questions about Taverna, then please email support@mygrid.org.uk 300 shared items \| 0 announcements Members (17): Alan Williams Jma... Alex Nenadic Paolo Romano Mike 'Mike' Jones Alex Voss Kmee Peter Li Carole Goble Franck Tanoh Katy Wolstencroft Stuart Owen Paul Fisher Antoon Goderis Jiten Bhagat David Withers Stian Soiland-Reyes Tags: developers \| e-science \| mygrid \| omii-uk \| taverna	View
Administrator: Alan Williams	Taverna 1.7.1 workflow workbench examples Unique name: tavernaExamples Created: Wednesday 05 March 2008 @ 13:45:09 (GMT) The workflows visible from this group correspond to the examples from the Taverna 1.7.1 workflow workbench 17 shared items \| 0 announcements Members (3): Alan Williams Katy Wolstencroft Franck Tanoh Tags: example \| mygrid \| official \| taverna	View
Administrator: Mike Chelen	Taverna Help Unique name: taverna-help Created: Wednesday 07 January 2009 @ 14:54:33 (GMT) Help and guides for using Taverna Workbench www.mygrid.org.uk/tools/taverna/taverna-2-0/download-taverna-2-0/ 0 shared items \| 2 announcements Members (1): Mike Chelen Tags: help \| taverna Latest announcement:: Linux users	View
Administrator: Paul Fisher	Taverna 1 Tutorial Unique name: taverna1tutorial Created: Wednesday 14 January 2009 @ 15:10:18 (GMT) This group was created for anyone who is currently undergoing Taverna 1 training. Please feel free to add your workflows, packs, and files as you wish. 0 shared items \| 0 announcements Members (5): Paul Fisher Ldu... Prisni Rath Raj Bari Yijun Tags: taverna \| training \| tutorial	View
Administrator: Paul Fisher	Newcastle MSc. Unique name: NewcastleMsc Created: Wednesday 04 March 2009 @ 14:53:45 (GMT) This group was create for the Newcastle MSc. 1 shared item \| 0 announcements Members (23): Paul Fisher Ale... Mat... Kri... Prisni Rath Meenu Pipat Peter Hebden Monica Bhaskar Fergus Ric... Jennifer Warrender Andrew David King Jan... Franck Tanoh Bil... William lupton Craigt Omo... fox... Moh... Wsz... Iwo... Moh... Tags: msc \| newcastle \| taverna \| tutorial	View
Administrator: David Withers	SADI Unique name: sadi Created: Thursday 07 January 2010 @ 00:57:16 (GMT) No description 2 shared items \| 0 announcements Members (4): David Withers Reinout van Schouwen Her... Mark Wilkinson Tags: sadi \| taverna	View
Administrator: cneudecker	IMPACT-myGrid-Hackathon Created: Friday 04 November 2011 @ 13:29:38 (GMT) Group for sharing workflows & resources for the IMPACT-myGrid-hackathon: http://impact-mygrid-taverna-hackathon.wikispaces.com 23 shared items \| 0 announcements Members (26): cne... Mus... David Withers Donal Fellows Carl Roman Martin Schenck Aci... Lizzy shi Gra... Chr... Allen Cpa... Luc mioulet Rabeux Cla... Markus Plangg Ahm... Peter May Eib... per... Markus R. Sven Katy Wolstencroft Alan Williams Neu... Tags: hackathon \| impact \| scape \| taverna	View

Files (7)

Uploader: Franck Tanoh	Taverna tutorial Created: 03/03/08 @ 11:15:00 \| Last updated: 03/03/08 @ 11:16:11 Credits: Franck Tanoh Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 Unported License A step by step guide on how to build workflows in Taverna. Biology oriented but should be ok with other background with a 'tiny' Biology knowledge. I welcome your comments and suggestions. File type: PowerPoint presentation Rating: 4.0 / 5 (1 rating) \| Comments: 0 \| Viewed: 97 times \| Downloaded: 181 times Tags: taverna \| tutorial	View Download
Uploader: Franck Tanoh	Taverna tutorial Created: 03/03/08 @ 11:05:24 \| Last updated: 03/03/08 @ 11:20:45 Credits: Franck Tanoh Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 Unported License A step by step guide on how to build workflows in Taverna. This tutorial is designed for any background. i welcome your comments and suggestions. File type: PowerPoint presentation Rating: 4.0 / 5 (2 ratings) \| Comments: 4 \| Viewed: 237 times \| Downloaded: 382 times Tags: taverna \| tutorial	View Download
Uploader: Katy Wolstencroft	The Data Playground: An Intuitive Workflow Specification Environment Created: 02/06/08 @ 14:46:40 Credits: Katy Wolstencroft Andrew Gibson License: Creative Commons Attribution-Share Alike 3.0 Unported License This is a copy of the paper we wrote for the 3rd International Conference on e-Science and Grid Computing 2007 (http://www.escience2007.org/index.asp). It won the Best Paper award! File type: Adobe PDF Rating: 4.0 / 5 (1 rating) \| Comments: 0 \| Viewed: 88 times \| Downloaded: 130 times Tags: biomoby \| publication \| semantic discovery \| taverna \| workflow environment	View Download
Uploader: Katy Wolstencroft	An Introduction to Taverna Tutorial Created: 17/06/08 @ 14:17:20 Credits: Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 Unported License No description File type: PowerPoint presentation Rating: 0.0 / 5 (0 ratings) \| Comments: 0 \| Viewed: 65 times \| Downloaded: 137 times Tags: taverna \| tutorial	View Download
Uploader: Katy Wolstencroft	EraSysBio Summer School Taverna Tutorial Created: 24/07/09 @ 21:54:27 Credits: Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 Unported License This tutorial is an introduction to Taverna and myExperiment File type: application/mspowerpoint Rating: 0.0 / 5 (0 ratings) \| Comments: 0 \| Viewed: 17 times \| Downloaded: 33 times Tags: myexperiment \| systems biology \| taverna \| tutorial	View Download
Uploader: Marie Brown	Automated Workflows for Accurate Mass-based Putative Metabolite Identification in LC/MS-derived Metabolomic Datasets Created: 03/03/11 @ 15:27:04 \| Last updated: 03/03/11 @ 15:27:07 Credits: Marie Brown License: Creative Commons Attribution-No Derivative Works 3.0 Unported License Three workflows, together defined as PUTMEDID-LCMS, have been developed using the open source Taverna environment to perform putative metabolite identification based on accurate mass data acquired from liquid chromatography-electrospray mass spectrometry instruments. Three workflows perform the following steps. (Step 1) Generation of a list of pairwise peak correlations required for input to workflow 2 (workflow 1) (Step 2) Annotation of features to group different ion types of the same metab... File type: application/x-zip-compressed Rating: 0.0 / 5 (0 ratings) \| Comments: 0 \| Viewed: 16 times \| Downloaded: 14 times Tags: metabolic profiling \| metabolite identification \| metabolomics \| taverna \| xcms	View Download
Uploader: Anja Le Blanc	Introduction to Taverna and HELIO presentation Created: 19/04/12 @ 09:00:18 Credits: Anja Le Blanc License: Creative Commons Attribution-Share Alike 3.0 Unported License Introductorily presentation to Taverna for HELIO users. It was given as part of the Taverna workshop for HELIO. File type: PowerPoint presentation Rating: 0.0 / 5 (0 ratings) \| Comments: 0 \| Viewed: 4 times \| Downloaded: 2 times Tags: helio \| presentation \| taverna	View Download