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InviteGroup: Baywatch Solutions
MyExperiment Group for the Team Baywatch (Solutions).
Newcastle University, 2010 MSc Bioinformatics e-Science Group B.
2010 Prize Winners!!!
Created at: Wednesday 10 March 2010 @ 18:39:50 (GMT)
Unique name: teambncl
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Workflow
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Original Uploader |
Created: 19/03/10 @ 13:23:40
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Fetches an EMBL file using the EMBL id. Creates file to a specified location.
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 16 times | Downloaded: 8 times This Workflow has no tags! |
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Workflow
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Original Uploader |
Created: 19/03/10 @ 13:32:07
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Fetches fasta and genbank files for a given identifier.,
e.g., CP000256
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 16 times | Downloaded: 10 times This Workflow has no tags! |
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Workflow
|
Original Uploader |
Created: 19/03/10 @ 12:09:15
Credits:
Attributions:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
This workflow allows you to configure a BioMart query to fetch sequences you want from Ensembl. These sequences are retrieved and a blast database of them is created (by default, in the directory you ran taverna from).
Warning: This workflow assumes that you have blastall and formatdb installed on the machine, and that by default, these are both found or linked in /usr/local/bin. It also assumes that you have write permission to the directory you have run taverna from. The beanshells "creat...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 33 times | Downloaded: 10 times This Workflow has no tags! |
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Workflow
|
Original Uploader |
Created: 19/03/10 @ 12:20:29
Credits:
Attributions:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
This workflow allows you to configure a BioMart query to fetch sequences you want from Ensembl. These sequences are retrieved and a blast database of them is created (by default, in the directory you ran taverna from).
Warning: This workflow assumes that you have blastall and formatdb installed on the machine, and that by default, these are both found or linked in /usr/local/bin. It also assumes that you have write permission to the directory you have run taverna from. The beanshells "creat...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 26 times | Downloaded: 9 times This Workflow has no tags! |
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Download (v1)
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Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:46:37
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
The KEGG pathway analysis of the workflow takes a list of UniProt accession numbers in any of the following formats with the following prefixes:
External database Database prefix
----------------- ---------------
NCBI GI ncbi-gi:
NCBI GeneID ncbi-geneid:
GenBank genbank:
UniGene unigene:
UniProt uniprot:
It performs this using the web service bconv, provided by the KEGG database (Kanehisa et a...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 55 times | Downloaded: 37 times Tags (1): |
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Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:53:54
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Warning: The files are hardcoded in to the beanshell of this workflow.
Given an orthlog file for an organism from
http://www.ebi.ac.uk/integr8/FtpSearch.do?
orgProteomeId=22602,
find proteins that are orthologous to proteins
in another oragnsims, e.g., B.subtils. Outputs
percent.
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 17 times | Downloaded: 6 times This Workflow has no tags! |
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Workflow
|
Original Uploader |
Created: 19/03/10 @ 15:53:18
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
The KEGG pathway analysis of the workflow takes a list of UniProt accession numbers in any of the following formats with the following prefixes:
External database Database prefix ----------------- --------------- NCBI GI ncbi-gi:
NCBI GeneID ncbi-geneid:
GenBank genbank:
UniGene unigene:
UniProt uniprot:
It performs this using the web service bconv, provided by the KEGG database (Kanehisa et al., 2010), described in the KEGG API available at: http://www.genome.jp/kegg/docs/keggapi...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 54 times | Downloaded: 12 times This Workflow has no tags! |
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Download (v1)
|
Note: some items may not be visible to you, due to viewing permissions.
Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:23:40
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Fetches an EMBL file using the EMBL id. Creates file to a specified location.
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 16 times | Downloaded: 8 times This Workflow has no tags! |
View
Download (v1)
|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:32:07
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Fetches fasta and genbank files for a given identifier.,
e.g., CP000256
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 16 times | Downloaded: 10 times This Workflow has no tags! |
View
Download (v1)
|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 12:09:15
Credits:
Attributions:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
This workflow allows you to configure a BioMart query to fetch sequences you want from Ensembl. These sequences are retrieved and a blast database of them is created (by default, in the directory you ran taverna from).
Warning: This workflow assumes that you have blastall and formatdb installed on the machine, and that by default, these are both found or linked in /usr/local/bin. It also assumes that you have write permission to the directory you have run taverna from. The beanshells "creat...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 33 times | Downloaded: 10 times This Workflow has no tags! |
View
Download (v1)
|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 12:20:29
Credits:
Attributions:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
This workflow allows you to configure a BioMart query to fetch sequences you want from Ensembl. These sequences are retrieved and a blast database of them is created (by default, in the directory you ran taverna from).
Warning: This workflow assumes that you have blastall and formatdb installed on the machine, and that by default, these are both found or linked in /usr/local/bin. It also assumes that you have write permission to the directory you have run taverna from. The beanshells "creat...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 26 times | Downloaded: 9 times This Workflow has no tags! |
View
Download (v1)
|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:42:38
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Runs the M-GCAT tool for Global Sequence Comparison.
M-GCAT: http://alggen.lsi.upc.es/recerca/align/mgcat/
intro-mgcat.html
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 14 times | Downloaded: 13 times Tags (3): |
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|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:46:37
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
The KEGG pathway analysis of the workflow takes a list of UniProt accession numbers in any of the following formats with the following prefixes:
External database Database prefix
----------------- ---------------
NCBI GI ncbi-gi:
NCBI GeneID ncbi-geneid:
GenBank genbank:
UniGene unigene:
UniProt uniprot:
It performs this using the web service bconv, provided by the KEGG database (Kanehisa et a...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 55 times | Downloaded: 37 times Tags (1): |
View
Download (v1)
|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 13:53:54
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
Warning: The files are hardcoded in to the beanshell of this workflow.
Given an orthlog file for an organism from
http://www.ebi.ac.uk/integr8/FtpSearch.do?
orgProteomeId=22602,
find proteins that are orthologous to proteins
in another oragnsims, e.g., B.subtils. Outputs
percent.
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 17 times | Downloaded: 6 times This Workflow has no tags! |
View
Download (v1)
|
Workflow
|
Original Uploader |
Created: 19/03/10 @ 15:53:18
Credits:
License: Creative Commons Attribution-No Derivative Works 3.0 Unported License
The KEGG pathway analysis of the workflow takes a list of UniProt accession numbers in any of the following formats with the following prefixes:
External database Database prefix ----------------- --------------- NCBI GI ncbi-gi:
NCBI GeneID ncbi-geneid:
GenBank genbank:
UniGene unigene:
UniProt uniprot:
It performs this using the web service bconv, provided by the KEGG database (Kanehisa et al., 2010), described in the KEGG API available at: http://www.genome.jp/kegg/docs/keggapi...
Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 54 times | Downloaded: 12 times This Workflow has no tags! |
View
Download (v1)
|
Linked Data
Non-Information Resource URI: http://www.myexperiment.org/groups/246
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Copyright © 2007 - 2011 The University of Manchester and University of Southampton
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