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Showing 11 results. Use the filters on the left and the search box below to refine the results.
Wsdl: http://www.ebi.ac.uk/Tools/services/soap/ncbiblast?wsdl
Original Uploader

Workflow NCBI BLAST (SOAP) (1)

Created: 29/11/10 @ 20:03:13 | Last updated: 28/03/13 @ 12:44:56

Attributions: Workflow EBI_NCBI_BLAST Workflow NCBI BLAST (SOAP)

License: Apache License v2.0

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Perform a BLAST search using the EMBL-EBI’s NCBI BLAST (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/sss/ncbi_blast_soap). The query sequence, database to search and BLAST program to use are inputs, the other parameters for the search are allowed to default.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 164 times | Downloaded: 159 times

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Original Uploader

Workflow EBI_NCBI_BLAST (4)

Created: 17/01/11 @ 12:51:58 | Last updated: 30/05/13 @ 11:51:59

Credits: User Katy Wolstencroft User Hamish McWilliam

Attributions: Workflow EBI_NCBI_BLAST

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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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...

Rating: 0.0 / 5 (0 ratings) | Versions: 4 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 886 times | Downloaded: 136 times

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Original Uploader

Workflow NCBI BLAST (SOAP) (1)

Created: 29/11/10 @ 20:46:58 | Last updated: 28/03/13 @ 12:45:26

Credits: User Hamish McWilliam

Attributions: Workflow EBI_NCBI_BLAST Workflow NCBI BLAST (SOAP)

License: Apache License v2.0

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Perform a BLAST search using the EMBL-EBI’s NCBI BLAST (SOAP) service (see http://www.ebi.ac.uk/Tools/webservices/services/sss/ncbi_blast_soap). The query sequence, database to search and BLAST program to use are inputs, the other parameters for the search are allowed to default.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 99 times | Downloaded: 58 times

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Original Uploader

Workflow blastn and blastx (1)

Created: 08/06/11 @ 15:24:57 | Last updated: 08/06/11 @ 15:37:27

Credits: User Niek

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow accepts an url of a fasta file as input and performs an NCBI blastn at the EBI against the bacteria database and an NCBI blastx against the uniref90 database.  From the blast results of the blastx the hit with the lowest e-value is taken and the GO is returned. Output is blastx and blastn results and GO from the first hit of the blastx.   Based on Katy Wolstencroft & Hamish McWilliam EBI_NCBI_BLAST http://www.myexperiment.org/workflows/1765.html

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 65 times | Downloaded: 32 times

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Original Uploader

Workflow Get top blastx hit of a list of contigs (1)

Created: 04/05/12 @ 12:44:27 | Last updated: 04/05/12 @ 13:31:22

Credits: User BioCo Consultants

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow takes a contigs.fasta file , gets all the ORF's present in it , runs blastx on each ORF, gets the FASTA file of the top blastX hit and its GI number.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 49 times | Downloaded: 22 times

This Workflow has no tags!

Original Uploader

Workflow EBI NCBI BLAST filter e-value and length (1)

Created: 23/08/13 @ 10:24:02 | Last updated: 06/02/14 @ 14:44:58

Credits: User Sonja Holl

Attributions: Workflow EBI_NCBI_BLAST

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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The workflow queries the NCBI BLAST web service and extracts the e-values and length of the results. One of the sub-workflows filters the length first and afterwards the e-value and the other sub-workflow filters first the e-value and then the length. As the result may be different, this workflow was used for optimization purposes to find the sub-workflow performing best.

Rating: 5.0 / 5 (1 rating) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 38 times | Downloaded: 29 times

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Original Uploader

Workflow EBI NCBI BLAST Multi FASTA (2)

Created: 16/07/11 @ 19:08:38 | Last updated: 16/07/11 @ 19:35:11

Credits: User Rafael C. Jimenez

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow performs multiple sequence similarity searches using the NCBI blast at the EBI. It 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. If you want to make a blast search for more than 10 sequences I would recommend you to run the workflow using the comm...

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 105 times | Downloaded: 76 times

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Original Uploader

Workflow Blast_and_Interproscan (5)

Created: 28/01/13 @ 10:07:16 | Last updated: 30/01/13 @ 12:45:33

Credits: User Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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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. The sequences for the top 10 hits are retrieved from the UniProt database and analysed using InterproScan (also from the EBI) to determine functional domains and motifs in each sequenc...

Rating: 0.0 / 5 (0 ratings) | Versions: 5 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 124 times | Downloaded: 52 times

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Original Uploader

Workflow Blast Report from ID (1)

Created: 07/04/11 @ 22:28:28 | Last updated: 07/04/11 @ 22:39:44

Credits: User Hectorj2f

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow retrieves a fasta sequence or blast report from an id. Firstly, given some inputs (e.g. ids:EDL10223.1, format:fasta, style:default and db:emblcds), it returns the sequence in fasta format associated to those inputs using the EBI's WSDbfetch web service (see http://www.ebi.ac.uk/Tools/webservices/services/dbfetch). Next, we obtain a Blast report from this fasta sequence and some others parameters. The final result in that case corresponds with the same fasta sequence introduced...

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 60 times | Downloaded: 25 times

This Workflow has no tags!

Original Uploader

Workflow Find compounds pharmacology and align agai... (1)

Created: 16/10/13 @ 14:12:06

Credits: User Stian Soiland-Reyes User Katy Wolstencroft

Attributions: Workflow Blast_Align_and_Tree

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Look up concept URI from freetext, e.g. "aspirin", find compound pharmacology and their target info. For each target, blast+tree on its sequence - if any. Uses the Open PHACTs API https://dev.openphacts.org/docs/alpha and the myExperiment workflow 3369 "Blast_Align_and_Tree" http://www.myexperiment.org/workflows/3369. Notice that in tihs workflow, most concepts won't have compounds, and most compounds won't have targets, and most targets won't have a sequence - Open PHACT API wise this mean...

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 55 times | Downloaded: 32 times

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