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BLASTP with simplified results returned

Workflow Entry: BLASTP with simplified results returned

Created at: 03/10/07 @ 18:36:06 Last updated: 03/12/09 @ 16:28:50

Version 2 (latest) (of 2)

Version created on: 03/10/07 @ 18:36:06 by: Paul Fisher | Revision comments Expand

Last edited on: 03/12/09 @ 16:28:51 by: Paul Fisher

Title: BLASTP with simplified results returned

Type: Taverna 1

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Description

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

program:

blastp

database: DDBJ

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Download Workflow File/Package (SCUFL)

Run

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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/21/download?version=2
[ More Info Expand ]

Workflow Components

Inputs (3)

Name	Description
database
program
query

Processors (4)

Name	Type	Description
species_filter	stringconstant
chromosome_filter	stringconstant
blast_ddbj	arbitrarywsdl	See the Service entry for this web service.
blastfilecomparer	soaplabwsdl	Compares a new BLAST file output with an older BLAST file output to check for new hits

Beanshells (0)

Outputs (2)

Name	Description
blast_output
compared_output

Links (8)

Source	Sink
blast_ddbj:Result	blastfilecomparer:blastResult_direct_data
database	blast_ddbj:database
program	blast_ddbj:program
query	blast_ddbj:query
blast_ddbj:Result	blast_output
blastfilecomparer:output	compared_output
chromosome_filter:value	blastfilecomparer:chromo
species_filter:value	blastfilecomparer:species

Coordinations (0)

Information Workflow Type

Taverna 1

Information Original Uploader

Paul Fisher

Information License

All versions of this Workflow are licensed under:

Information Credits (0)

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Information Attributions (0)

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Information Tags (6)

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Information Ratings (1)

Current:

4.0 / 5

(1 rating)

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Information Attributed By (0)

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Information Favourited By (0)

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Information Statistics

1201 viewings

1473 downloads

[ see breakdown ]

Citations (0)

None

Version History

Earliest Version:
[1] - BLASTP with simplified results returned

Created on: Wednesday 03 October 2007 @ 18:36:06 (GMT)

Created by: Paul Fisher

Revision comments:

None

Latest Version:
[2] - BLASTP with simplified results returned

Created on: Wednesday 03 October 2007 @ 18:36:06 (GMT)

Created by: Paul Fisher

Last edited on: Thursday 03 December 2009 @ 16:28:51 (GMT)

Last edited by: Paul Fisher

Revision comments:

None

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Other workflows that use similar services (50)

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

Taverna 1

Original Uploader

Lebreton

retrieve protein sequence and do a high speed BLAST from DDBJ Web services (v1)

Created: 01/09/10 @ 17:16:24 | Last updated: 01/09/10 @ 17:18:45

Credits: Lebreton

Attributions: retrieve protein sequence and do a high speed BLAST and extract position from DDBJ Web services

License: Creative Commons Attribution-Share Alike 3.0 Unported License

retrieve protein sequence and do a high speed BLAST from DDBJ Web services informations on Web services available at http://xml.nig.ac.jp/index.html example accession : Q9NRA8 database : ddbjbct program : tblastn param : -b 100 -v 100

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 18 times | Downloaded: 12 times

Tags (6):