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Overview
Provider:
European Bioinformatics Institute (EMBL-EBI)
Location:
United Kingdom
Submitter/Source:
Michael Cornell
Curator
(over 6 years ago)
Base URL:
http://www.ebi.ac.uk/Tools/services/soap/infernal_cmscan
WSDL Location:
http://www.ebi.ac.uk/Tools/services/soap/infernal_cmscan?wsdl (download last cached WSDL file)
![header=[] body=[Member] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]](/assets/user-640ae220771289ec897691747ffd93bf.png)
Infernal cmscan is used to search the CM-format Rfam database. The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models.
![header=[] body=[An ELIXIR Description must be a short (maximum of 2 sentences), succinct description of the Webservice. It should no contain links or be overly technical. If you are unsure, this should be left blank.] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200] Info](/assets/info-092c542cd75fb00e5270a8b7c81dc616.png)
![header=[] body=[Member] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]](/assets/user-640ae220771289ec897691747ffd93bf.png)
Infernal cmscan is used to search the CM-format Rfam database. The Rfam database is a collection of RNA families, each represented by multiple sequence alignments, consensus secondary structures and covariance models.
![header=[] body=[What are the license(s) that people using this service have to adhere to? For now you can mention the specific license(s) and/or provide URL(s).] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200] Info](/assets/info-092c542cd75fb00e5270a8b7c81dc616.png)
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This service does not require a license but should be used according to EMBL-EBI’s policies http://www.ebi.ac.uk/about/terms-of-use
![header=[] body=[What are the usage conditions on this service? For example: not allowed more than 2 requests per minute and 100 requests per hour.] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200] Info](/assets/info-092c542cd75fb00e5270a8b7c81dc616.png)
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E-mail supplied for submission must be a valid e-mail address and no more than 30 concurrent jobs should be submitted at any one time, see http://www.ebi.ac.uk/Tools/webservices/ and the EMBL-EBI Terms of Use: http://www.ebi.ac.uk/about/terms-of-use
![header=[] body=[Who can be contacted about this Service Deployment?] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200] Info](/assets/info-092c542cd75fb00e5270a8b7c81dc616.png)
![header=[] body=[What papers have been published <b>for</b> this service (this can be in a common citation format like Bibtex, MLA or APA, a DOI, a URL, etc.)] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200] Info](/assets/info-092c542cd75fb00e5270a8b7c81dc616.png)
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McWilliam H., Li W., Uludag M., Squizzato S., Park Y.M., Buso N., Cowley A.P. and Lopez R. (2013) “Analysis Tool Web Services from the EMBL-EBI” Nucleic Acids Res. 41(Web Server issue):W597-600 PMID: 23671338 (http://europepmc.org/abstract/MED/23671338) DOI: 10.1093/nar/gkt376
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Goujon M., McWilliam H., Li W., Valentin F., Squizzato S., Paern J. and Lopez R (2010) “A new bioinformatics analysis tools framework at EMBL-EBI” Nucleic Acids Res. 38(Web Server issue):W695-9 PMID: 20439314 (http://europepmc.org/abstract/MED/20439314) DOI: 10.1093/nar/gkq313
![header=[] body=[Member] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]](/assets/user-640ae220771289ec897691747ffd93bf.png)
Burge S.W., Daub J., Eberhardt R., Tate J., Barquist L., Nawrocki E.P., Eddy S.R., Gardner P.P. and Bateman A. (2013) “Rfam 11.0: 10 years of RNA families” Nucleic Acids Res. 41(Database issue):D226-32 PMID: 23125362 (http://europepmc.org/abstract/MED/23125362) DOI: 10.1093/nar/gks1005
![header=[] body=[Member] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200]](/assets/user-640ae220771289ec897691747ffd93bf.png)
Nawrocki E.P. and Eddy S.R. (2013) “Infernal 1.1: 100-fold faster RNA homology searches” Bioinformatics 29(22):2933-2935 PMID: 24008419 (http://europepmc.org/abstract/MED/24008419) DOI: 10.1093/bioinformatics/btt509
![header=[] body=[Example workflows that utilize this service (e.g. a link to a workflow on myExperiment)] cssheader=[boxoverTooltipHeader] cssbody=[boxoverTooltipBody] delay=[200] Info](/assets/info-092c542cd75fb00e5270a8b7c81dc616.png)
Members Responsible for this Service (2)
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Michael Cornell
Curator
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EMBL-EBI Support
Favourited By (0)
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