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EBI_Kalign (1)

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Multiple sequence alignment using the Kalign tool. This workflow uses the EBI's WSKalign service (see http://www.ebi.ac.uk/Tools/webservices/services/kalign) to access the Kalign tool. The set of sequences to align and the molecule type (protein or nucleic acid) are the input, the other parameters for the search (see Job_params) are allowed to default. Note: the WSKalign service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. Thi...

Created: 2008-06-02 | Last updated: 2010-12-06

Credits: Hamish McWilliam

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The Data Playground: An Intuitive Workflow Specifica...

Created: 2008-06-02 14:46:40

Credits: Katy Wolstencroft Andrew Gibson

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

Comments: 0 | Viewed: 235 times | Downloaded: 242 times

EBI_blastpgp_PSI-BLAST (1)

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Perform a PSI-BLAST iterative search using the EBI’s WSBlastpgp service (see http://www.ebi.ac.uk/Tools/webservices/services/blastpgp). The query sequence, database to search and users e-mail address are inputs, the other parameters for the search (see Job_params) are allowed to default. In most cases you will probably want to adjust the expectation thresholds and the maximum number of iterations for your specific query sequence and the database being searched.

Created: 2008-05-31

Credits: Hamish McWilliam

Termine Webservice (1)

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Termine is a service provided by the National Centre for Text Mining (NaCTeM) to assist in the discovery of terms in text. More information on the Termine service can be found here. This workflow represents the simplest method of using Termine. The input represents a text string with the output being an string containing a representation of the list of terms, with their C-Value scores (representing significance in the text), in a simple xml format. Other variations of this tools will be adde...

Created: 2008-05-19 | Last updated: 2008-05-19

Credits: Brian Rea National Centre for Text Mining (NaCTeM)

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Using Taverna and webservices as tools to revive a d...

Created: 2008-04-20 17:04:40

Credits: Bas Vroling

License: Creative Commons Attribution 3.0 Unported License

File type: Adobe PDF

Comments: 0 | Viewed: 168 times | Downloaded: 146 times

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Taverna tutorial

Created: 2008-03-03 11:15:00 | Last updated: 2008-03-03 11:16:11

Credits: Franck Tanoh Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PowerPoint presentation

Comments: 0 | Viewed: 227 times | Downloaded: 300 times

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Output from FLOSS Communication Centralization Workflow

Created: 2008-02-10 01:56:29 | Last updated: 2008-06-09 21:53:03

Credits: Andrea Wiggins Crowston James Howison

Attributions: FLOSS Communication Centralization Plot, Exponentially Weighted

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PNG image

Comments: 0 | Viewed: 257 times | Downloaded: 126 times

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Introduction to NCeSS Data Mining Pilot Project

Created: 2007-11-22 15:51:42

Credits: Yuwei Lin

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Adobe PDF

Comments: 1 | Viewed: 196 times | Downloaded: 0 times

couple (1)

My Girl Friend and me ^o^/

Created: 2007-11-16 | Last updated: 2007-11-16

Credits: Hong Chang Bum

getFragWithClosure2 (2)

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with parameters

Created: 2007-10-03

Microarray CEL file to candidate pathways (2)

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This workflow takes in a CEL file and a normalisation method then returns a series of images/graphs which represent the same output obtained using the MADAT software package (MicroArray Data Analysis Tool) [http://www.bioinf.manchester.ac.uk/MADAT/index.html]. Also retruned by this workflow are a list of the top differentialy expressed genes (size dependant on the number specified as input - geneNumber), which are then used to find the candidate pathways which may be influencing the observed ...

Created: 2007-10-03

querySWS_minimalQuery (2)

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SRS by WS (SWS) is a set of Web Services allowing to retrieve database entries from libraries included in public SRS sites. The querySWS service implement a search on the basis of the database name (lib) and the term to be searched (query). It automatically identifies the best site to query. Additional parameters include in_fields (in which part of the record the terms are searched), out_fields (which information is returned) and site (the SRS site). This workflow is just a demonstration ...

Created: 2007-10-03

Fetch Dragon images from BioMoby v2 (2)

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demonstration to ISSGC07

Created: 2007-10-03

Python script for face and smile detection (1)

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Created: 2019-05-16 | Last updated: 2019-09-27

Credits: George Kargas

Integrated workflow for MSA, Similarity sc... (3)

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Integrated workflow for MSA, Similarity score estimation, and gaps trimming using Clustal Omega and web services at http://bioservices.sci.psu.ac.th/ We demonstrate the workflow using example fasta seqs.

Created: 2016-02-28 | Last updated: 2017-08-16

Credits: Kasikrit Damkliang

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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

12 items in this pack

Comments: 0 | Viewed: 206 times | Downloaded: 31 times

Explain concept scores (7)

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Purpose of workflow: This workflow takes two concept ids as input and returns the top ranking "B" concepts according to Swanson's ABC model of discovery, where the relationships AB and BC are known and reported in the literature, and the implicit relationship AC is a putative new discovery. It might also be the case that AC is already known. In that case AC does not represent a new discovery but will still be returned (see workflow example values). The B concepts are returned sorted on the pe...

Created: 2012-02-07 | Last updated: 2014-07-14

Credits: Reinout van Schouwen

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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

12 items in this pack

Comments: 0 | Viewed: 260 times | Downloaded: 142 times

RDKit-pains-parallel (2)

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If you like this workflow, please reference our paper doi:10.1002/minf.201100076, and check the related workflows RDKit-pains, and Indigo-pains.*** Update 20151119 - using KNIME 3 and RDKit version of PAINS queries ****** This version contains Parallel processing nodes to take advantage of mutil-core processors ***Implementation of the PAINS filters[1] using the RDKit (3.0.0.201511131320) nodes in KNIME (3.0.1). Original PAINS filters were published in SLN format. This workflow contains the S...

Created: 2011-10-13 | Last updated: 2015-12-01

Credits: sauberns

Attributions: RDKit-pains

EBI_NCBI_BLAST (4)

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This workflow performs an NCBI blast at the EBI. It accepts a protein sequence as input. Default values have been set for the search database (Uniprot), the number of hits to return (10), and all scoring and matrix options. These can be changed in the workflow by altering the string constant values if required. This workflow uses the new EBI services. They are asynchronous and so require looping over the nested workflow (Status) until the workflow has finished. Many of the EBI services now wo...

Created: 2011-01-17 | Last updated: 2013-05-30

Credits: Katy Wolstencroft Hamish McWilliam

Attributions: EBI_NCBI_BLAST

caDSR Data service query in caGrid (3)

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This workflow is used as an example in this wiki article: https://wiki.cagrid.org/display/knowledgebase/How+to+Create+CaGrid+Workflow+Using+Taverna+2   Tested with Taverna 2.1.2 as of 6/10/2010

Created: 2010-05-25 | Last updated: 2010-06-11

Credits: Wei Tan

Support-Vector-Machine (SVM) based data cl... (2)

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Support-Vector-Machine based data classificationSupport-Vector-Machine based data classification using genePattern SVM service, the input should be in genePattern STATML format.

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

Credits: Wei Tan

G-language Genome Analysis Environment - S... (2)

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This workflow calculates the Student's T-test and Pearson/Spearman correlations. See http://www.g-language.org/ for more information about the G-language Genome Analysis Environment.

Created: 2010-04-05

Credits: cory (Kazuki Oshita)