This looks like a Soaplab service. Click here for more info and guidance on how to use this service )
About Soaplab
Soaplab services are command line applications, wrapped as SOAP services, and served from a Soaplab server. All Soaplab services have the same generic set of SOAP operations (depending on the Soaplab version) as they all share a standardised interface.
Certain tools, like the Taverna workflow workbench, provide automatic support for the Soaplab way of executing these services. In some cases you will need to use the Soaplab Server Base URL rather than the WSDL location in these tools.
More information on Soaplab clients is available here.
Further documentation on Soaplab services is available:
- Soaplab overview
- Soaplab client guide page
- EBI Soaplab server documentation
- Soaplab 2
- Sourceforge site for EMBOSS Soaplab services
Provider:
European Bioinformatics Institute (EMBL-EBI)
Location:
UNITED KINGDOM
Submitter/Source:
Mike Mayer (over 9 years ago)
Base URL:
http://www.ebi.ac.uk/soaplab/services/protein_3d_structure.sigscan
WSDL Location:
http://www.ebi.ac.uk/soaplab/services/protein_3d_structure.sigscan?wsdl(download last cached WSDL file)
Documentation URL(s): None Login to add a documentation URL Description(s): No description(s) yet Login to add a description ELIXIR Description(s): No info yet Login to add an elixir description Details (from Soaplab server): from Soaplab server(over 8 years ago)
- ds_lsr_analysis :
- analysis :
- name : sigscan
- output :
- installation : Soaplab2 default installation
- version : 6.3.0
- type : Protein 3D Structure
- description : Generates hits (DHF file) from a signature search
- analysis_extension :
- input :
- analysis :
- ds_lsr_analysis :
- analysis :
- name : sigscan
- output :
- installation : Soaplab2 default installation
- version : 6.3.0
- type : Protein 3D Structure
- description : Generates hits (DHF file) from a signature search
- analysis_extension :
- parameter :
- data :
- list :
- list_item :
- level : 0
- value : abi
- level : 0
- value : ace
- level : 0
- value : acedb
- level : 0
- value : bam
- level : 0
- value : biomart
- level : 0
- value : clustal
- level : 0
- value : codata
- level : 0
- value : dbid
- level : 0
- value : embl
- level : 0
- value : ensembl
- level : 0
- value : experiment
- level : 0
- value : fasta
- level : 0
- value : fastq
- level : 0
- value : fastq-illumina
- level : 0
- value : fastq-sanger
- level : 0
- value : fastq-solexa
- level : 0
- value : fitch
- level : 0
- value : gcg
- level : 0
- value : genbank
- level : 0
- value : genpept
- level : 0
- value : gff2
- level : 0
- value : gff3
- level : 0
- value : gifasta
- level : 0
- value : hennig86
- level : 0
- value : ig
- level : 0
- value : igstrict
- level : 0
- value : jackknifer
- level : 0
- value : mase
- level : 0
- value : mega
- level : 0
- value : msf
- level : 0
- value : nbrf
- level : 0
- value : nexus
- level : 0
- value : pdb
- level : 0
- value : pdbnuc
- level : 0
- value : pdbnucseq
- level : 0
- value : pdbseq
- level : 0
- value : pearson
- level : 0
- value : phylip
- level : 0
- value : phylipnon
- level : 0
- value : raw
- level : 0
- value : refseqp
- level : 0
- value : sam
- level : 0
- value : selex
- level : 0
- value : staden
- level : 0
- value : stockholm
- level : 0
- value : strider
- level : 0
- value : swiss
- level : 0
- value : text
- level : 0
- value : treecon
- type : full
- list_item :
- list :
- base :
- data :
- ioformat : unspecified
- iotype : input
- repeatable :
- base :
- data :
- ioformat : unspecified
- iotype : input
- repeatable :
- base :
- range :
- format : %f
- max : 100.
- min : 1.
- repeatable :
- base :
- name : gapo
- ordering : 6
- option :
- name : EDAM:
- type : normal
- value : Generic float
- name : scalemax
- type : style
- value : 100.
- name : scalemin
- type : style
- value : 1.
- help : This option specifies the gap insertion penalty. The gap insertion penalty is the score taken away when a gap is created. The best value depends on the choice of comparison matrix. The default value assumes you are using the EBLOSUM62 matrix for protein sequences, and the EDNAMAT matrix for nucleotide sequences.
- default : 10
- qualifier : gapo
- mandatory : false
- prompt : Gap insertion penalty
- type : float
- range :
- format : %f
- max : 10.
- min : 0.0
- repeatable :
- base :
- name : gape
- ordering : 7
- option :
- name : EDAM:
- type : normal
- value : Generic float
- name : scalemax
- type : style
- value : 10.
- name : scalemin
- type : style
- value : 0.0
- help : This option specifies the gap extension penalty. The gap extension penalty is added to the standard gap penalty for each base or residue in the gap. This is how long gaps are penalized. Usually you will expect a few long gaps rather than many short gaps, so the gap extension penalty should be lower than the gap penalty.
- default : 0.5
- qualifier : gape
- mandatory : false
- prompt : Gap extension penalty
- type : float
- standard :
- list :
- list_item :
- shown_as : Align anywhere and allow only complete signature-sequence fit
- level : 0
- value : 1
- shown_as : Align anywhere and allow partial signature-sequence fit
- level : 0
- value : 2
- shown_as : Use empirical gaps only
- level : 0
- value : 3
- name : N-terminal matching options
- type : full
- list_item :
- repeatable :
- list :
- base :
- range :
- format : %d
- repeatable :
- base :
- name : nhits
- ordering : 9
- option :
- name : EDAM:
- type : normal
- value : Generic integer
- help : This option specifies the maximum number of hits to output.
- default : 100
- qualifier : nhits
- mandatory : false
- prompt : Max. number of hits to output
- type : long
- data :
- result :
- iotype : output
- base :
- data :
- result :
- iotype : output
- base :
- data :
- option :
- name : emboss
- type : normal
- value : true
- name : installation
- type : normal
- value : Soaplab2 default installation
- name : version
- type : normal
- value : 6.3.0
- app_info :
- category : protein_3d_structure
- help_url : http://emboss.sourceforge.net/apps/release/6.3/emboss/apps/sigscan.html
- event :
- action :
- id : _E_1
- parameter :
- input :
- name : gapo
- default : 10
- mandatory : false
- type : float
- name : gape
- default : 0.5
- mandatory : false
- type : float
- name : nhits
- default : 100
- mandatory : false
- type : long
- analysis :
License(s): No info yet Login to add license info Cost: No info yet Login to add cost info Usage conditions: No info yet Login to add usage conditions info Contact info: No info yet Login to add contact info How to cite this service: No info yet Login to add how to cite info Publications about this service: for this service (this can be in a common citation format like Bibtex, MLA or APA, a DOI, a URL, etc.) No info yet Login to add publications info Citations of this service: No info yet Login to add citations info Example workflows using this service: See all workflows on myExperiment that use this service Login to add workflows info