EMBOSS ehmmemit SOAP Soaplab

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Provider:
European Bioinformatics Institute (EMBL-EBI)

Location:
United Kingdom

Submitter/Source:
SoapLab Support (over 11 years ago)

Base URL:
http://www.ebi.ac.uk:80/soaplab/typed/services/hmm.ehmmemit

WSDL Location:
http://www.ebi.ac.uk/soaplab/typed/services/hmm.ehmmemit?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/ehmmemit.html Login to add a documentation URL Description(s): from provider’s description doc (over 10 years ago) Generate sequences from a profile HMM.

SoapLab Support(over 10 years ago)

Generate sequences from a profile HMM.

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 : ehmmemit
    • installation : Soaplab2 default installation
    • type : HMM
    • output :
    • description : Generate sequences from a profile HMM.
    • version : 6.1.0
    • analysis_extension :
    • input :

Show all

• ds_lsr_analysis :
  • analysis :
    • name : ehmmemit
    • installation : Soaplab2 default installation
    • type : HMM
    • output :
    • description : Generate sequences from a profile HMM.
    • 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 : hmm
        • help_url : http://emboss.sourceforge.net/apps/release/6.1/emboss/apps/ehmmemit.html
      • parameter :
        • data :
          • ioformat : unspecified
          • iotype : input
          • repeatable :
        • base :
        • base :
          • name : c
          • help : Predict a single majority-rule consensus sequence instead of sampling sequences from the HMM’s probability distribution. Highly conserved residues (p >= 0.9 for DNA, p >= 0.5 for protein) are shown in upper case; others are shown in lower case. Some insert states may become part of the majority rule consensus, because they are used in >= 50% of generated sequences; when this happens, insert-generated residues are simply shown as ‘x’.
          • default : false
          • mandatory : false
          • qualifier : c
          • prompt : Output consensus sequence
          • type : boolean
          • ordering : 8
        • data :
          • result :
          • iotype : output
        • base :
        • range :
          • format : %d
          • min : 0
          • repeatable :
        • base :
          • name : seed
          • help : Set the random seed to , where is a positive integer. The default is to use time() to generate a different seed for each run, which means that two different runs of hmmemit on the same HMM will give slightly different results. You can use this option to generate reproducible results.
          • default : 0
          • mandatory : false
          • qualifier : seed
          • prompt : Random seed
          • type : long
          • ordering : 4
        • base :
          • name : a
          • help : Write the generated sequences in an aligned format (SELEX) rather than FASTA.
          • default : false
          • mandatory : false
          • qualifier : a
          • prompt : Output in selex format
          • type : boolean
          • ordering : 7
        • range :
          • format : %d
          • repeatable :
        • base :
          • name : nseq
          • help : Generate sequences. Default is 10.
          • default : 10
          • mandatory : false
          • qualifier : nseq
          • prompt : Number of sequences to produce
          • type : long
          • ordering : 9
        • base :
          • name : q
          • help : Quiet; suppress all output except for the sequences themselves. Useful for piping or directing the output.
          • default : false
          • mandatory : false
          • qualifier : q
          • prompt : Suppress output except sequences.
          • type : boolean
          • ordering : 10
    • input :
      • name : c
      • default : false
      • mandatory : false
      • type : boolean
      • name : seed
      • default : 0
      • mandatory : false
      • type : long
      • name : a
      • default : false
      • mandatory : false
      • type : boolean
      • name : nseq
      • default : 10
      • mandatory : false
      • type : long
      • name : q
      • default : false
      • mandatory : false
      • type : boolean

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