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DNA sequence analysis pilot

Workflow Entry: DNA sequence analysis pilot

Created at: 10/07/09 @ 14:31:27 Last updated: 30/11/09 @ 09:37:38

Version 1 (of 1)

Version created on: 10/07/09 @ 14:31:27 by: Angela Luijf | Revision comments Expand

Last edited on: 30/11/09 @ 09:37:39 by: Angela Luijf

Title: DNA sequence analysis pilot

Type: Taverna 1

Preview

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Description

http://amc-app1.amc.sara.nl/twiki/bin/view/

Workflow-based DNA sequence analysis on the Dutch Life Science Grid,
presented as Application Showcase at the NBIC Conference 2009, Lunteren, The Netherlands, 17 & 18 March 2009.

http://www.biomedgrid.it/programme
may 15th 2009. Hands on workflow: grid-enabled medical imaging (Johan Montagnat – Tristan Glatard)

Download

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Option 1:

Launch in Taverna

Note: you need to have both the WHIP Launcher and the Taverna myExperiment/WHIP plugin installed on your machine for this to work. See here for information.

Option 2:

Copy and paste this link into File > 'Open workflow location...'
http://www.myexperiment.org/workflows/840/download?version=1
[ More Info Expand ]

Workflow Components

Inputs (3)

Name	Description
sffTar
patternFile
reference_gz

Processors (10)

Name	Type	Description
empty	stringconstant
BlastConfigFile	stringconstant
patternMatch_configfile	stringconstant
sff2fasta_configfile	stringconstant
patternMatch	arbitrarywsdl	Service definition of function ns__GASWexecution
sffToFasta	arbitrarywsdl	Service definition of function ns__GASWexecution
Blastall	arbitrarywsdl	Service definition of function ns__GASWexecution
sffExecutable	stringconstant
formatdbExe	stringconstant
blastallExe	stringconstant

Beanshells (0)

Outputs (3)

Name	Description
BlastTarFile
qualOutputTarFile
txtOutputTarFile

Links (16)

Source	Sink
patternFile	patternMatch:input2
blastallExe:value	Blastall:input1
empty:value	sffToFasta:command-line
formatdbExe:value	Blastall:input2
patternMatch_configfile:value	patternMatch:config-file
reference_gz	Blastall:input3
sff2fasta_configfile:value	sffToFasta:config-file
sffTar	sffToFasta:input0
BlastConfigFile:value	Blastall:config-file
patternMatch:result0	Blastall:input0
sffExecutable:value	sffToFasta:input1
sffToFasta:result0	patternMatch:input0
sffToFasta:result1	patternMatch:input1
Blastall:result0	BlastTarFile
patternMatch:result1	qualOutputTarFile
patternMatch:result2	txtOutputTarFile

Coordinations (0)

Information Workflow Type

Taverna 1

Information Original Uploader

Angela Luijf

Information License

All versions of this Workflow are licensed under:

Information Credits (2)

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Information Attributions (0)

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None

Information Tags (5)

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Information Ratings (0)

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Information Attributed By (1)

(Workflows/Files)

DNA sequence analysis pilot (Blat)

Information Favourited By (1)

GentleYang

Information Statistics

1024 viewings

609 downloads

[ see breakdown ]

Citations (0)

None

Version History

Earliest Version:
[1] - DNA sequence analysis pilot

Created on: Friday 10 July 2009 @ 14:31:27 (GMT)

Created by: Angela Luijf

Last edited on: Monday 30 November 2009 @ 09:37:39 (GMT)

Last edited by: Angela Luijf

Revision comments:

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This Workflow only has one version.

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Comments (1)

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Paul Fisher

Hi,

I just noticed this was a scufl workflow, which appears to be a Taverna workflow. Is that the case? If so, it may be worth while to also tag it as a Taverna (1 or 2) workflow to increase its exposure.

regards,

Paul.