Workflow Entry: EBI_Kalign

Created at: 02/06/08 @ 21:28:57

Version 1 (of 1)

Version created on: 02/06/08 @ 21:28:56 by: Hamish McWilliam | Revision comments Expand

Title: EBI_Kalign

Type: Taverna 1

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Description

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.

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Option 2:

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http://www.myexperiment.org/workflows/217/download?version=1
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Workflow Components

Inputs (3)

Name	Description
Sequences	Sequences to align (fasta format recommended).
Email_address	User e-mail address.
Molecule_type	Molecule type: P for protein or N for nucleotide.

Processors (7)

Name	Type	Description
runKalign	arbitrarywsdl	Submit a Kalign analysis job (see http://www.ebi.ac.uk/Tools/webservices/services/kalign#runkalign_params_content)
Get_alignment	arbitrarywsdl	Get the results of a job (see http://www.ebi.ac.uk/Tools/webservices/services/kalign#poll_jobid_type)
Job_params	local
Contents_list	local
Input_data	local
Unpack_alignment	local
EBI_Kalign_poll_job	workflow

Outputs (2)

Name	Description
Kalign_alignment	The alignment in ClustalW style format.
Kalign_job_id	EBI job identifier.

Links (11)

Sink	Source
runKalign:content	Contents_list:output
Job_params:email	Email_address
Contents_list:WSArrayofData	Input_data:output
runKalign:params	Job_params:output
Input_data:content	Sequences
Unpack_alignment:bytes	Get_alignment:output
Job_params:moltype	Molecule_type
EBI_Kalign_poll_job:Job_ID	runKalign:jobid
Kalign_alignment	Unpack_alignment:string
Get_alignment:jobid	runKalign:jobid
Kalign_job_id	runKalign:jobid