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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.
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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 (EBI)
Location:
United Kingdom
Submitter / Source:
uludag (about 1 year ago)
Base URL:
http://www.ebi.ac.uk:80/soaplab/typed/services/alignment_consensus.cons
WSDL Location:
http://www.ebi.ac.uk/soaplab/typed/services/alignment_consensus.cons?wsdl(download last cached WSDL file)
Soaplab Server Base URL:
http://www.ebi.ac.uk:80/soaplab/typed/services
Soaplab Server WSDL:
http://www.ebi.ac.uk/soaplab/typed/services/list?wsdl
Documentation URL(s): uludag (about 1 year ago)http://emboss.sourceforge.net/apps/release/6.0/emboss/apps/cons.html
Login to add a documentation URL Description(s): from provider’s description doc (6 months ago) Create a consensus sequence from a multiple alignment
uludag (about 1 year ago)Create a consensus sequence from a multiple alignment
Login to add a description Details (from Soaplab server): from Soaplab server(6 months ago)
- ds_lsr_analysis :
- analysis :
- name : cons
- type : Alignment Consensus
- installation : Soaplab2 default installation
- output :
- version : 6.1.0
- description : Create a consensus sequence from a multiple alignment
- input :
- analysis_extension :
- analysis :
- ds_lsr_analysis :
- analysis :
- name : cons
- type : Alignment Consensus
- installation : Soaplab2 default installation
- output :
- version : 6.1.0
- description : Create a consensus sequence from a multiple alignment
- input :
- name : identity
- default : 0
- mandatory : false
- type : long
- analysis_extension :
- option :
- name : emboss
- type : normal
- value : true
- name : installation
- type : normal
- value : Soaplab2 default installation
- name : version
- type : normal
- value : 6.1.0
- event :
- action :
- id : _E_1
- app_info :
- category : alignment_consensus
- help_url : http://emboss.sourceforge.net/apps/release/6.1/emboss/apps/cons.html
- parameter :
- base :
- data :
- list :
- list_item :
- level : 0
- value : gcg
- level : 0
- value : gcg8
- level : 0
- value : embl
- level : 0
- value : swiss
- level : 0
- value : fasta
- level : 0
- value : ncbi
- level : 0
- value : genbank
- level : 0
- value : nbrf
- level : 0
- value : pir
- level : 0
- value : codata
- level : 0
- value : strider
- level : 0
- value : clustal
- level : 0
- value : phylip
- level : 0
- value : acedb
- level : 0
- value : msf
- level : 0
- value : jackknifer
- level : 0
- value : jackknifernon
- level : 0
- value : nexus
- level : 0
- value : nexusnon
- level : 0
- value : treecon
- level : 0
- value : mega
- level : 0
- value : meganon
- level : 0
- value : ig
- level : 0
- value : staden
- level : 0
- value : text
- level : 0
- value : raw
- type : full
- list_item :
- list :
- base :
- data :
- ioformat : unspecified
- iotype : input
- repeatable :
- range :
- format : %f
- repeatable :
- base :
- name : plurality
- help : Set a cut-off for the number of positive matches below which there is no consensus. The default plurality is taken as half the total weight of all the sequences in the alignment.
- qualifier : plurality
- mandatory : false
- option :
- name : calculated_default
- type : normal
- value : ${sequence.totweight} / 2
- type : float
- prompt : Plurality check value
- ordering : 6
- range :
- format : %d
- min : 0
- repeatable :
- base :
- name : identity
- default : 0
- help : Provides the facility of setting the required number of identities at a site for it to give a consensus at that position. Therefore, if this is set to the number of sequences in the alignment only columns of identities contribute to the consensus.
- qualifier : identity
- mandatory : false
- type : long
- prompt : Required number of identities at a position
- ordering : 7
- range :
- format : %f
- repeatable :
- base :
- name : setcase
- help : Sets the threshold for the positive matches above which the consensus is is upper-case and below which the consensus is in lower-case.
- qualifier : setcase
- mandatory : false
- option :
- name : calculated_default
- type : normal
- value : ${sequence.totweight} / 2
- type : float
- prompt : Define a threshold above which the consensus is given in uppercase
- ordering : 8
- base :
- data :
- result :
- iotype : output
- standard :
- repeatable :
- base :
- standard :
- list :
- list_item :
- level : 0
- value : gcg
- level : 0
- value : gcg8
- level : 0
- value : embl
- level : 0
- value : swiss
- level : 0
- value : fasta
- level : 0
- value : ncbi
- level : 0
- value : genbank
- level : 0
- value : nbrf
- level : 0
- value : pir
- level : 0
- value : codata
- level : 0
- value : strider
- level : 0
- value : clustal
- level : 0
- value : phylip
- level : 0
- value : acedb
- level : 0
- value : msf
- level : 0
- value : jackknifer
- level : 0
- value : jackknifernon
- level : 0
- value : nexus
- level : 0
- value : nexusnon
- level : 0
- value : treecon
- level : 0
- value : mega
- level : 0
- value : meganon
- level : 0
- value : ig
- level : 0
- value : staden
- level : 0
- value : text
- level : 0
- value : raw
- type : full
- list_item :
- repeatable :
- list :
- base :
- option :
- analysis :
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