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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:
SoapLab Support (almost 12 years ago)
Base URL:
http://www.ebi.ac.uk:80/soaplab/typed/services/alignment_multiple.edialign
WSDL Location:
http://www.ebi.ac.uk/soaplab/typed/services/alignment_multiple.edialign?wsdl(download last cached WSDL file)
Documentation URL(s): SoapLab Support (over 10 years ago) http://emboss.sourceforge.net/apps/release/6.0/emboss/apps/edialign.html Login to add a documentation URL Description(s): from provider’s description doc (over 10 years ago) Local multiple alignment of sequences
SoapLab Support(over 10 years ago)
Local multiple alignment of sequences
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 10 years ago)
- ds_lsr_analysis :
- analysis :
- name : edialign
- installation : Soaplab2 default installation
- type : Alignment Multiple
- output :
- description : Local multiple alignment of sequences
- version : 6.1.0
- analysis_extension :
- input :
- analysis :
- ds_lsr_analysis :
- analysis :
- name : edialign
- installation : Soaplab2 default installation
- type : Alignment Multiple
- output :
- description : Local multiple alignment of sequences
- version : 6.1.0
- 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_multiple
- help_url : http://emboss.sourceforge.net/apps/release/6.1/emboss/apps/edialign.html
- parameter :
- 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 :
- result :
- iotype : output
- base :
- choice_list :
- separator : ,
- grouptype : zero_or_more
- base :
- name : nucmode_n
- default : true
- mandatory : false
- qualifier : n
- type : boolean
- prompt : simple
- ordering : 5
- name : nucmode_nt
- default : false
- mandatory : false
- qualifier : nt
- type : boolean
- prompt : translation
- ordering : 6
- name : nucmode_ma
- default : false
- mandatory : false
- qualifier : ma
- type : boolean
- prompt : mixed alignments
- ordering : 7
- base :
- base :
- name : revcomp
- default : false
- mandatory : false
- qualifier : revcomp
- prompt : Also consider the reverse complement
- type : boolean
- ordering : 8
- choice_list :
- separator : ,
- grouptype : zero_or_more
- base :
- name : overlapw_default__when_Nseq____35_
- default : false
- mandatory : false
- qualifier : default (when Nseq =< 35)
- type : boolean
- ordering : 10
- name : overlapw_yes
- default : false
- mandatory : false
- qualifier : yes
- type : boolean
- ordering : 11
- name : overlapw_no
- default : false
- mandatory : false
- qualifier : no
- type : boolean
- ordering : 12
- base :
- choice_list :
- separator : ,
- grouptype : zero_or_more
- base :
- name : linkage_UPGMA
- default : true
- mandatory : false
- qualifier : UPGMA
- type : boolean
- prompt : UPGMA
- ordering : 14
- name : linkage_max
- default : false
- mandatory : false
- qualifier : max
- type : boolean
- prompt : maximum linkage
- ordering : 15
- name : linkage_min
- default : false
- mandatory : false
- qualifier : min
- type : boolean
- prompt : minimum linkage
- ordering : 16
- base :
- range :
- format : %d
- min : 0
- repeatable :
- base :
- name : maxfragl
- default : 40
- mandatory : false
- qualifier : maxfragl
- prompt : Maximum fragment length
- type : long
- ordering : 17
- base :
- name : fragmat
- default : false
- mandatory : false
- qualifier : fragmat
- prompt : Consider only N-fragment pairs that start with two matches
- type : boolean
- ordering : 18
- range :
- format : %d
- min : 0
- repeatable :
- base :
- name : fragsim
- default : 4
- mandatory : false
- qualifier : fragsim
- prompt : Consider only P-fragment pairs if first amino acid or codon pair has similarity score of at least n
- type : long
- ordering : 19
- base :
- name : itscore
- default : false
- mandatory : false
- qualifier : itscore
- prompt : Use iterative score
- type : boolean
- ordering : 20
- range :
- format : %f
- min : 0.0
- repeatable :
- base :
- name : threshold
- default : 0.0
- option :
- name : scalemin
- type : style
- value : 0.0
- mandatory : false
- qualifier : threshold
- prompt : Threshold for considering diagonal for alignment
- type : float
- ordering : 21
- base :
- name : mask
- default : false
- mandatory : false
- qualifier : mask
- prompt : Replace unaligned characters by stars ‘*’ rather then putting them in lowercase
- type : boolean
- ordering : 24
- base :
- name : dostars
- default : false
- mandatory : false
- qualifier : dostars
- prompt : Activate writing of stars instead of numbers
- type : boolean
- ordering : 25
- range :
- format : %d
- min : 0
- repeatable :
- base :
- name : starnum
- default : 4
- mandatory : false
- qualifier : starnum
- prompt : Put up to n stars ‘*’ instead of digits 0-9 to indicate level of conservation
- type : long
- ordering : 26
- data :
- result :
- iotype : output
- 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 :
- data :
- option :
- input :
- name : nucmode_n
- default : true
- mandatory : false
- type : boolean
- name : nucmode_nt
- default : false
- mandatory : false
- type : boolean
- name : nucmode_ma
- default : false
- mandatory : false
- type : boolean
- name : revcomp
- default : false
- mandatory : false
- type : boolean
- name : overlapw_default__when_Nseq____35_
- default : false
- mandatory : false
- type : boolean
- name : overlapw_yes
- default : false
- mandatory : false
- type : boolean
- name : overlapw_no
- default : false
- mandatory : false
- type : boolean
- name : linkage_UPGMA
- default : true
- mandatory : false
- type : boolean
- name : linkage_max
- default : false
- mandatory : false
- type : boolean
- name : linkage_min
- default : false
- mandatory : false
- type : boolean
- name : maxfragl
- default : 40
- mandatory : false
- type : long
- name : fragmat
- default : false
- mandatory : false
- type : boolean
- name : fragsim
- default : 4
- mandatory : false
- type : long
- name : itscore
- default : false
- mandatory : false
- type : boolean
- name : threshold
- default : 0.0
- mandatory : false
- type : float
- name : mask
- default : false
- mandatory : false
- type : boolean
- name : dostars
- default : false
- mandatory : false
- type : boolean
- name : starnum
- default : 4
- 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