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Items tagged with "wu-blast" (4)

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Taverna 1

Original Uploader

Hamish McWilliam

EBI_WU-BLAST (v1)

Created: 30/05/08 @ 22:47:19 | Last updated: 02/06/08 @ 21:30:18

Credits: Hamish McWilliam

License: Creative Commons Attribution 3.0 License

Perform a BLAST search using the EBI's WSWUBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/wublast). The default parameters search UniProtKB using blastp. To change the job parameters see Job_params.

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

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Taverna 1

Original Uploader

Hamish McWilliam

EBI WU-BLAST with prompt (v2)

Created: 30/05/08 @ 22:56:50 | Last updated: 02/06/08 @ 21:30:43

Credits: Hamish McWilliam

Attributions: EBI_WU-BLAST

License: Creative Commons Attribution 3.0 License

Run a BLAST analysis using the EBI's WSWUBlast service (see http://www.ebi.ac.uk/Tools/webservices/services/wublast). This workflow wraps the EBI_WU-BLAST workflow to provide a basic user interface which prompts for the required inputs: sequence, database, BLAST program and user e-mail. Other parameters (e.g. matrix, sort, gap penalties, etc.) are allowed to default.

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

Viewed: 370 times | Downloaded: 269 times

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Taverna 1

Original Uploader

Hamish McWilliam

Protein_search_fetch_align_tree (v1)

Created: 31/05/08 @ 21:09:18

Credits: Hamish McWilliam

Attributions: EBI_ClustalW2 EBI_ClustalW2_phylogentic_tree EBI_dbfetch_fetchBatch EBI_WU-BLAST

License: Creative Commons Attribution 3.0 License

An implmentation of the classical sequence analysis workflow: 1. Find homologues (sequence similarity search) 2. Fetch homologues 3. Align homologues (multiple sequence alignment) 4. Produce phylogenetic tree In this implementation the EBI webservices are used: 1. WU-BLAST (WSWUBlast) blastp vs. UniProtKB 2. dbfetch (WSDbfetch) 3. ClustalW (WSClustalW2) 4. ClustalW (WSClustalW2) Note: this version does not add the inital query sequence to the alignment, and so is most useful when used with ...

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

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Taverna 1

Original Uploader

Hamish McWilliam

EBI_Blast2InterPro (v2)

Created: 07/06/08 @ 10:52:47 | Last updated: 26/10/08 @ 20:45:46

Credits: Hamish McWilliam

Attributions: EBI_WU-BLAST EBI_dbfetch_fetchBatch Fasta_string_to_fasta_list EBI_InterProScan

License: Creative Commons Attribution 3.0 License

Perform a BLAST search add information about the InterPro matches associated with the hits. This implementation uses: 1. EBI’s WSWUBlast web service (http://www.ebi.ac.uk/Tools/webservices/services/wublast) to perform the initial BLAST search against UniProtKB. 2. EBI’s WSDbfetch web service (http://www.ebi.ac.uk/Tools/webservices/services/dbfetch) to retreive the sequences of the hits found by BLAST. 3. EBI’s WSInterProScan web service (http://www.ebi.ac.uk/Tools/webservices/services/int...

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

Viewed: 353 times | Downloaded: 341 times

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