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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:
Mike Mayer (over 9 years ago)
Base URL:
http://www.ebi.ac.uk/soaplab/services/alignment_multiple.prettyplot
WSDL Location:
http://www.ebi.ac.uk/soaplab/services/alignment_multiple.prettyplot?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 : prettyplot
- output :
- installation : Soaplab2 default installation
- version : 6.3.0
- type : Alignment Multiple, Display
- description : Draw a sequence alignment with pretty formatting
- analysis_extension :
- input :
- analysis :
- ds_lsr_analysis :
- analysis :
- name : prettyplot
- output :
- installation : Soaplab2 default installation
- version : 6.3.0
- type : Alignment Multiple, Display
- description : Draw a sequence alignment with pretty formatting
- 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 :
- range :
- format : %d
- max :
- min : 1
- repeatable :
- base :
- name : resbreak
- ordering : 7
- option :
- name : EDAM:0001249
- type : normal
- value : data Sequence length
- name : calculated_default
- type : normal
- value : ${residuesperline}
- name : calculated_hardmax
- type : normal
- value : ${residuesperline}
- name : scalemin
- type : style
- value : 1
- qualifier : resbreak
- mandatory : false
- prompt : Residues before a space
- type : long
- standard :
- list :
- list_item :
- shown_as : Portable Network Graphics (png)
- level : 0
- value : png
- shown_as : Postscript
- level : 0
- value : colourps
- type : full
- list_item :
- repeatable :
- list :
- base :
- data :
- ioformat : unspecified
- iotype : input
- repeatable :
- base :
- range :
- format : %d
- repeatable :
- base :
- name : residuesperline
- ordering : 6
- option :
- name : EDAM:0001249
- type : normal
- value : data Sequence length
- help : The number of residues to be displayed on each line
- default : 50
- qualifier : residuesperline
- mandatory : false
- prompt : Number of residues to be displayed on each line
- type : long
- base :
- name : ccolours
- ordering : 8
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : ccolours
- mandatory : false
- prompt : Colour residues by their consensus value.
- type : boolean
- standard :
- repeatable :
- base :
- standard :
- repeatable :
- base :
- standard :
- repeatable :
- base :
- base :
- name : docolour
- ordering : 12
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : docolour
- mandatory : false
- prompt : Colour residues by table oily, amide etc.
- type : boolean
- standard :
- repeatable :
- base :
- base :
- range :
- format : %d
- min : 0
- repeatable :
- base :
- name : identity
- ordering : 15
- option :
- name : EDAM:0002152
- type : normal
- value : data Rendering parameter
- default : 0
- qualifier : identity
- mandatory : false
- prompt : Only match those which are identical in all sequences.
- type : long
- base :
- name : box
- ordering : 16
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : box
- mandatory : false
- prompt : Display prettyboxes
- type : boolean
- base :
- name : boxcol
- ordering : 17
- option :
- name : EDAM:0002151
- type : normal
- value : data Colour
- default : false
- qualifier : boxcol
- mandatory : false
- prompt : Colour the background in the boxes
- type : boolean
- standard :
- repeatable :
- base :
- base :
- name : name
- ordering : 19
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : name
- mandatory : false
- prompt : Display the sequence names
- type : boolean
- range :
- format : %d
- repeatable :
- base :
- name : maxnamelen
- ordering : 20
- option :
- name : EDAM:0002152
- type : normal
- value : data Rendering parameter
- default : 10
- qualifier : maxnamelen
- mandatory : false
- prompt : Margin size for the sequence name.
- type : long
- base :
- name : number
- ordering : 21
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : number
- mandatory : false
- prompt : Display the residue number
- type : boolean
- base :
- name : listoptions
- ordering : 22
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : listoptions
- mandatory : false
- prompt : Display the date and options used
- type : boolean
- range :
- format : %f
- repeatable :
- base :
- name : plurality
- ordering : 23
- option :
- name : EDAM:0001773
- type : normal
- value : data Tool-specific parameter
- name : calculated_default
- type : normal
- value : ${sequences.totweight} / 2
- qualifier : plurality
- mandatory : false
- prompt : Plurality check value (totweight/2)
- type : float
- base :
- name : consensus
- ordering : 25
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : consensus
- mandatory : false
- prompt : Display the consensus
- type : boolean
- base :
- name : collision
- ordering : 26
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : collision
- mandatory : false
- prompt : Allow collisions in calculating consensus
- type : boolean
- standard :
- list :
- list_item :
- shown_as : Normal collision check. (default)
- level : 0
- value : 0
- shown_as : Compares identical scores with the max score found. So if any other residue matches the identical score then a collision has occurred.
- level : 0
- value : 1
- shown_as : If another residue has a greater than or equal to matching score and these do not match then a collision has occurred.
- level : 0
- value : 2
- shown_as : Checks all those not in the current consensus.If any of these give a top score for matching or identical scores then a collision has occured.
- level : 0
- value : 3
- type : full
- list_item :
- repeatable :
- list :
- base :
- range :
- format : %d
- repeatable :
- base :
- name : showscore
- ordering : 29
- option :
- name : EDAM:0002152
- type : normal
- value : data Rendering parameter
- default : -1
- qualifier : showscore
- mandatory : false
- prompt : Print residue scores
- type : long
- base :
- name : portrait
- ordering : 30
- option :
- name : EDAM:0002135
- type : normal
- value : data Toggle
- default : false
- qualifier : portrait
- mandatory : false
- prompt : Set page to Portrait
- type : boolean
- data :
- result :
- iotype : output
- base :
- data :
- result :
- iotype : output
- base :
- name : Graphics_in_PNG
- ordering : 33
- option :
- name : EDAM:0001711
- type : normal
- value : data Sequence alignment image
- name : allow_non_existent
- type : normal
- value : true
- name : datatype
- type : normal
- value : bindata
- name : mimetype
- type : normal
- value : image/png
- name : nodisplay
- type : style
- value : true
- method : %%%Graphics_in_PNG%%% ${Graphics_in_PNG}
- qualifier : Graphics_in_PNG
- mandatory : false
- type : byte[][]
- data :
- option :
- name : EDAM:0000091
- type : normal
- value : topic Database and file management
- name : EDAM:0000182
- type : normal
- value : topic Sequence alignment
- name : EDAM:0000562
- type : normal
- value : operation Sequence alignment reformatting
- 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 : alignment_multiple
- help_url : http://emboss.sourceforge.net/apps/release/6.3/emboss/apps/prettyplot.html
- event :
- action :
- id : _E_1
- parameter :
- input :
- name : residuesperline
- default : 50
- mandatory : false
- type : long
- name : ccolours
- default : false
- mandatory : false
- type : boolean
- name : docolour
- default : false
- mandatory : false
- type : boolean
- name : identity
- default : 0
- mandatory : false
- type : long
- name : box
- default : false
- mandatory : false
- type : boolean
- name : boxcol
- default : false
- mandatory : false
- type : boolean
- name : name
- default : false
- mandatory : false
- type : boolean
- name : maxnamelen
- default : 10
- mandatory : false
- type : long
- name : number
- default : false
- mandatory : false
- type : boolean
- name : listoptions
- default : false
- mandatory : false
- type : boolean
- name : consensus
- default : false
- mandatory : false
- type : boolean
- name : collision
- default : false
- mandatory : false
- type : boolean
- name : showscore
- default : -1
- mandatory : false
- type : long
- name : portrait
- default : false
- mandatory : false
- type : boolean
- analysis :
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