DNA sequence analysis pilot (Blat)

Created: 2009-11-20 11:12:43 Last updated: 2009-11-30 09:35:38

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http://amc-app1.amc.sara.nl/twiki4/bin/view/BioLab

Workflow-based DNA sequence analysis on the Dutch Life Science Grid.

This workflow is based on http://www.myexperiment.org/workflows/840 , the last component (Blast analysis) is replaced by Blat analysis

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Workflow Components

Inputs (3)

Name	Description
sffTar
patternFile
referenceTar

Processors (9)

Name	Type	Description
BlatConfigFile	stringconstant
sff2fasta_configfile	stringconstant
empty	stringconstant
patternMatch_configfile	stringconstant
patternMatch	arbitrarywsdl	Service definition of function ns__GASWexecution
sffToFasta	arbitrarywsdl	Service definition of function ns__GASWexecution
Blat	arbitrarywsdl	Service definition of function ns__GASWexecution
sffExecutable	stringconstant
blatExe	stringconstant

Beanshells (0)

Outputs (3)

Name	Description
BlatTarFile
qualOutputTarFile
txtOutputTarFile

Links (15)

Source	Sink
patternFile	patternMatch:input2
empty:value	sffToFasta:command-line
sff2fasta_configfile:value	sffToFasta:config-file
sffTar	sffToFasta:input0
BlatConfigFile:value	Blat:config-file
patternMatch:result0	Blat:input0
patternMatch_configfile:value	patternMatch:config-file
referenceTar	Blat:input2
blatExe:value	Blat:input1
sffExecutable:value	sffToFasta:input1
patternMatch:result1	qualOutputTarFile
patternMatch:result2	txtOutputTarFile
sffToFasta:result0	patternMatch:input0
sffToFasta:result1	patternMatch:input1
Blat:result0	BlatTarFile

Coordinations (0)

Information Workflow Type

Taverna 1

Information Uploader

Angela Luijf

Information License

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Information Version 1 (earliest) (of 2)

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DNA sequence analysis pilot

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Information Statistics

3658 viewings

2130 downloads

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Version History

In chronological order:

DNA sequence analysis pilot (Blat)

Created by Angela Luijf on Friday 20 November 2009 10:50:13 (UTC)

Last edited by Angela Luijf on Friday 20 November 2009 11:06:56 (UTC)
DNA sequence analysis pilot (Blat)

Created by Angela Luijf on Friday 20 November 2009 11:12:43 (UTC)

Last edited by Angela Luijf on Monday 30 November 2009 09:35:39 (UTC)

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