EBI_ClustalW_alignment_tree

Created: 2008-05-31 13:53:04 Last updated: 2010-12-03 13:34:43

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Given a set of sequences perform an multiple sequence alignment and from the multiple alignment derive a phylogenetic tree. The popular ClustalW program (see http://www.clustal.org/), as implemented in the EBI's WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2) is used to perform both tasks.

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Workflow Components

Inputs (2)

Name	Description
Sequences	Input set of sequences to be aligned.
Email_address	User e-mail address.

Processors (2)

Name	Type	Description
ClustalW_alignment	workflow	Align the sequences.
ClustalW_phylogenetic_tree	workflow	Create a phylogenetic tree from the alignment.

Beanshells (2)

Name	Description	Inputs	Outputs
Is_done	Map job status into true/false is done flag	job_status	is_done
Is_done	Map job status into true/false is done flag	job_status	is_done

Outputs (2)

Name	Description
ClustalW_alignment	Multiple sequence alignment in ClustalW format.
ClustalW_tree	Neighbour-joining phylogenetic tree in PHYLIP format.

Links (6)

Source	Sink
Email_address	ClustalW_alignment:Email_address
Sequences	ClustalW_alignment:Sequences
ClustalW_alignment:ClustalW_alignment	ClustalW_phylogenetic_tree:Sequence_alignment
Email_address	ClustalW_phylogenetic_tree:Email_address
ClustalW_alignment:ClustalW_alignment	ClustalW_alignment
ClustalW_phylogenetic_tree:ClustalW_phylip_tree	ClustalW_tree

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Taverna 1

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Hamish McWilliam

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Hamish McWilliam

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Workflow for Automated Comparative Protein Sequences Analysis

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Information Statistics

3870 viewings

2717 downloads

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Version History

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EBI_ClustalW_alignment_tree

Created by Hamish McWilliam on Saturday 31 May 2008 13:53:04 (UTC)
EBI_ClustalW_alignment_tree

Created by Hamish McWilliam on Friday 03 December 2010 13:34:41 (UTC)

Revision comment:

Update for changes in the WSClustalW2 message names, which prevented the workflow for loading in Taverna.

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Other workflows that use similar services (7)

Only the first 2 workflows that use similar services are shown. View all workflows that use these services.

Taverna 1

Uploader

Hamish McWilliam

EBI_ClustalW2 (2)

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Perform a ClustalW multiple sequence alignment using the EBI’s WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2). The set of sequences to align are the input, the other parameters for the search (see Job_params) are allowed to default. Note: the WSClustalW2 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 ClustalW2 servi...

Created: 2009-04-07 | Last updated: 2010-12-06

Credits: Hamish McWilliam

Taverna 1

Uploader

Hamish McWilliam

EBI_ClustalW2_phylogentic_tree (2)

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Create a Neighbor-joining phylogenetic tree, with Kimura distance corrections, from a sequence alignment using the EBI's WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2).

Created: 2009-04-07

Credits: Hamish McWilliam