EBI FASTA with prompts

Created: 2008-05-30 23:53:16 Last updated: 2010-12-06 10:53:23

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Run a FASTA analysis using the EBIâ€™s WSFasta service (see http://www.ebi.ac.uk/Tools/webservices/services/fasta). This workflow wraps the EBI_FASTA workflow to provide a basic user interface which prompts for the required inputs: sequence, database, FASTA program and user e-mail. Other parameters (e.g. matrix, gap penalties, etc.) are allowed to default.

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Workflow Components

Inputs (0)

Processors (7)

Name	Type	Description
EBI_FASTA	workflow	Run a FASTA job using the EBI's WSFasta service.
Ask_for_email	local	Prompt for the user's e-mail address.
Ask_for_sequence	local	Prompt for the query sequence.
Select_FASTA_program	local	Select a program to perform the search.
Make_FASTA_program_list	local	Create the list of programs.
Make_database_list	local	Create a list of databases.
Select_database	local	Select the database to search.

Beanshells (0)

Outputs (1)

Name	Description
FASTA_report	Plain text FASTA output.

Links (7)

Source	Sink
Ask_for_email:answer	EBI_FASTA:E-mail
Ask_for_sequence:answer	EBI_FASTA:Sequence_or_ID
Make_FASTA_program_list:split	Select_FASTA_program:valueList
Make_database_list:split	Select_database:valueList
Select_FASTA_program:answer	EBI_FASTA:FASTA_Program
Select_database:answer	EBI_FASTA:Database
EBI_FASTA:FASTA_Text_Result	FASTA_report

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Information Workflow Type

Taverna 1

Information Uploader

Hamish McWilliam

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Information Version 1 (earliest) (of 3)

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Hamish McWilliam

Information Attributions (1)

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EBI_FASTA

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Information Statistics

4190 viewings

3121 downloads

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Version History

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EBI FASTA with prompts

Created by Hamish McWilliam on Friday 30 May 2008 23:53:16 (UTC)
EBI FASTA with prompts

Created by Hamish McWilliam on Friday 30 May 2008 23:53:16 (UTC)

Last edited by Hamish McWilliam on Saturday 31 May 2008 00:14:20 (UTC)

Revision comment:

Fix disappearing nested workflow.
EBI FASTA with prompts

Created by Hamish McWilliam on Friday 30 May 2008 23:53:16 (UTC)

Last edited by Hamish McWilliam on Monday 06 December 2010 10:53:23 (UTC)

Revision comment:

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Run a FASTA or SSEARCH sequence similarity search using the EBI's WSFasta service (see http://www.ebi.ac.uk/Tools/webservices/services/fasta). Note: the WSFasta service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. This service is will be retired during 2011. EBI's replacement FASTA services (REST or SOAP) should be used instead.

Created: 2008-05-30 | Last updated: 2010-12-06

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Transmembrane domain prediction using EMBOSS tmap with an input sequence alignment of homolouges: Sequence similarity search (SSS) to find homologues Fetch sequences of hits Multiple sequence alignment (MSA) of hit sequences EMBOSS tmap with alignment from 3. Uses the EBI web services: WSFasta (see http://www.ebi.ac.uk/Tools/webservices/services/fasta) WSDbfetch (see http://www.ebi.ac.uk/Tools/webservices/services/dbfetch) WSClustalW2 (see http://www.ebi.ac.uk/Tools/webservices/servic...

Created: 2008-06-01

Credits: Hamish McWilliam

Attributions: EBI_FASTA EBI_ClustalW2 EBI_dbfetch_fetchBatch