Multiple Blastp

Created: 2007-11-20 16:58:38 Last updated: 2008-01-10 12:09:38

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This is a workflow to automate multiple BLASTp jobs on a large list of protein sequences in FASTA format.

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Workflow Components

Inputs (1)

Name	Description
Protein_sequences

Processors (7)

Name	Type	Description
Database	stringconstant
searchSimple	arbitrarywsdl	Execute Blast
Program	stringconstant
Split_string_into_list	local
Concatenate_two_strings	local
Regex	stringconstant
removeFirstCharacter	arbitrarywsdl

Beanshells (0)

Outputs (1)

Name	Description
Blast_reports

Links (9)

Source	Sink
Database:value	searchSimple:database
Program:value	searchSimple:program
Protein_sequences	removeFirstCharacter:fastaList
Concatenate_two_strings:output	searchSimple:query
Regex:value	Concatenate_two_strings:string1
Regex:value	Split_string_into_list:regex
Split_string_into_list:split	Concatenate_two_strings:string2
removeFirstCharacter:removeFirstCharacterReturn	Split_string_into_list:string
searchSimple:Result	Blast_reports

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Information Workflow Type

Taverna 1

Information Uploader

Kieren Lythgow

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Information Version 1 (earliest) (of 2)

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Kieren Lythgow

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4174 viewings

3256 downloads

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Version History

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Multiple Blastp

Created by Kieren Lythgow on Tuesday 20 November 2007 16:58:38 (UTC)
Multiple Blastp

Created by Kieren Lythgow on Tuesday 20 November 2007 16:58:38 (UTC)

Last edited by Kieren Lythgow on Thursday 10 January 2008 12:09:38 (UTC)

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Paolo

need sample input to try this out, please

thx -Paolo

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Perform a blastp search on protein sequence and extract information based on the user input, e.g. a list of GI numbers. N.B. this workflow does not function correctly as it is designed for use with NCBI blast scripts. Some errors may occur. Please use two blast text file inputs for a secure result output. Example input for this service are given below. query: >MySequence MATDDSIIVLDDDDEDEAAAQPGPSNLPPNPASTGPGPGLSQQATGLSEPRVDGGSS NSGSRKCYKLDNEKLFEEFLELCKTETSDHPEVVPFLHKLQQRAQSV...

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BLAST using DDBJ service (2)

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Perform a sequence similarity search using the BLAST algorithm through the DDBJ web service. Example input for this service are given below. query: >MySequence MATDDSIIVLDDDDEDEAAAQPGPSNLPPNPASTGPGPGLSQQATGLSEPRVDGGSS NSGSRKCYKLDNEKLFEEFLELCKTETSDHPEVVPFLHKLQQRAQSVFLASAEFCNIL SRVLARSRKRPAKIYVYINELCTVLKAHSIKKKLNLAPAASTTSEASGPNPPTEPPSDLT NTENTASEASRTRGSRRQIQRLEQLLALYVAEIRRLQEKELDLSELDDPDSSYLQEAR LKRKLIRLFGRLCELKDCSSLTGRVIEQRIPYRGTRYPEVNRRIERLINKPGLDTFPDY GDVLRAVEKAATRHSLGLP...

Created: 2007-10-03 | Last updated: 2009-12-03