syco European Bioinformatics Institute http://www.ebi.ac.uk/soaplab/emboss4/services/nucleic_codon_usage.syco http://www.ebi.ac.uk/soaplab/emboss4/services/nucleic_codon_usage.syco?wsdl Displays synonymous codon usage Gribskov statistic plot. It is useful for locating protein coding regions, determining their reading frames, estimating the level of expression of a gene, and locating nucleic acid sequencing errors. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/syco.html syco Displays synonymous codon usage Gribskov statistic plot. It is useful for locating protein coding regions, determining their reading frames, estimating the level of expression of a gene, and locating nucleic acid sequencing errors. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/5.0/emboss/apps/syco.html sequence_usa Type: string. DNA sequence. The Uniform Sequence Address, or USA, is a standard way of specifying a sequence to be read into a program in EMBOSS. The most common ways of specifying a sequence is to type (database:entry), where database can be embl, uniprot or swissprot and entry is either the sequence`s entry or ID name, or its Accession number in that database. For example, database:accession -->embl:X65923 or swissprot:Q7M4G0 | database:entry_name -->swissprot:AMIC_PSEAE |database:ID_name -->embl:paamir. Choose either this parameter or the sequence_direct_data parameter but not both together. Parameter mandatory if the sequence_direct_data parameter has not been chosen. false String sequence_direct_data Type: string. DNA sequence. Choose this parameter if you want to provide the 'sequence' (DNA sequence) value as string. Parameter mandatory if the sequence_usa parameter hasn't been chosen. false http://www.mygrid.org.uk/ontology#DNA_sequence http://www.mygrid.org.uk/ontology#single_sequence_format String sformat Type: string. Specifies the format of the input sequence. This is an optional parameter. The allowed values for this parameter are: gcg, gcg8, embl, swiss, fasta, ncbi, genbank, nbrf, pir, codata, strider, clustal, phylip, acedb, msf, jackknifer, jackknifernon, nexus, nexusnon, treecon, mega, meganon, ig, staden, text, raw. By default the service autodetects the sequence format. false String sbegin Type: long. The first position to be used in the sequence, for example: sbegin=1 (default value) means start with the first base in the sequence. This is an optional parameter. false String send Type: long. The last position to be used in the sequence. This is an optional parameter. By default it is the end the sequence. false String sprotein Type: boolean. Is the sequence a protein? This is an optional parameter. By default the service can autodetect if a sequence is a nucleotide or protein sequence. false String snucleotide Type: boolean. Is the sequence a nucleotide? This is an optional parameter. By default the service can autodetect if a sequence is a nucleotide or protein sequence. false String sreverse Type: boolean. Use reverse complement of the nucleic acid sequence. This is an optional parameter. False by default. false String slower Type: boolean. Convert the sequence to lower case. This is an optional parameter. False by default false String supper Type: boolean. Convert the sequence to UPPER case. This is an optional parameter. False by default. false String graph_format Type: string. Format of the graphical output. This is an optional parameter. The allowed values for this parameter are: png, postscript, colourps, hpgl. The default value is 'png'. png false String cfile_direct_data Type: string. Codon usage table. This is mandatory parameter false String cfile_url Type: string. URL of the codon usage table. cfile_direct_data parameter and cfile_url are mutually exclusive. false String window Type:long. Average window. This is an optional parameter. The default value is 30. 30 false String uncommon Type: boolean (true/false). Show common codon usage. This is an optional parameter. The default value is 'false'. false false String minimum Type: float. Minimum value for a common codon. This is an optional parameter. The default value is 0.15. 0.15 false String plot Type: boolean (Yes/No). Produce plot. This is an optional parameter. The default value is 'Yes'. Y false String report Type: string. A general report for the underlying analysis job. false String detailed_status Type: long. The exit code of the underlying analysis job, 0 means the job returned normally. false String outfile Returns Gribskov value for each forward reading frame. false String Graphics_in_Postscript Returns synonymous codon usage Gribskov statistic plot in Postscript format. false String Graphics Returns synonymous codon usage Gribskov statistic plot. false byte[] Graphics_in_PNG Returns synonymous codon usage Gribskov statistic plot in png format. false byte[][] http://www.mygrid.org.uk/ontology#displaying http://www.mygrid.org.uk/ontology#EMBL_nucleotide_sequence_database Soaplab service