trimseq European Bioinformatics Institute http://www.ebi.ac.uk/soaplab/emboss4/services/edit.trimseq http://www.ebi.ac.uk/soaplab/emboss4/services/edit.trimseq?wsdl Trim ambiguous bits off the ends of sequences. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/trimseq.html trimseq Trim ambiguous bits off the ends of sequences. Detailed info about this operation can be found at the following link: http://emboss.sourceforge.net/apps/release/4.0/emboss/apps/trimseq.html sequence_usa Type: string. Any valid 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 http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter sequence_direct_data Type: string. Any valid sequence. Choose this parameter if you want to provide the 'sequence' value as string. Parameter mandatory if the sequence_usa parameter hasn't been chosen. false http://www.mygrid.org.uk/ontology#biological_sequence http://www.mygrid.org.uk/ontology#single_sequence_format String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter 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. false String sbegin Type: long. The first position to be used in the sequence, for example: sbegin=1 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. false String sprotein Type: boolean. Is the sequence a protein? This is an optional parameter. false String snucleotide Type: boolean. Is the sequence a nucleotide? This is an optional parameter. false String sreverse Type: boolean. Use reverse complement of the nucleic acid sequence. This is an optional parameter. false String slower Type: boolean. Convert the sequence to lower case. This is an optional parameter. false String supper Type: boolean. Convert the sequence to UPPER case. This is an optional parameter. false String window Type: long. This determines the size of the region that is considered when deciding whether the percentage of ambiguity is greater than the threshold. A value of 5 means that a region of 5 letters in the sequence is shifted along the sequence from the ends and trimming is done only if there is a greater or equal percentage of ambiguity than the threshold percentage. This is an optional parameter. The default value is 1. 1 false String percent Type: float. This is the threshold of the percentage ambiguity in the window required in order to trim a sequence. This is an optional parameter. The default value is 100.0. 100.0 false String strict Type: boolean. In nucleic sequences, trim off not only N's and X's, but also the nucleotide IUPAC ambiguity codes M, R, W, S, Y, K, V, H, D and B. In protein sequences, trim off not only X's but also B and Z. This is an optional parameter. The default value is 'false'. false false String star Type: boolean. In protein sequences, trim off not only X's, but also the *'s. This is an optional parameter. The default value is 'false'. false false String left Type: boolean. Trim at the start. This is an optional parameter. True by default. true false String right Type: boolean. Trim at the end. This is an optional parameter. True by default. true false String osformat Type: string. Format of the output sequence (outseq). 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. The default value is 'fasta'. fasta 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 outseq Returns trimmed sequence. false http://www.mygrid.org.uk/ontology#biological_sequence http://www.mygrid.org.uk/ontology#single_sequence_format String http://www.mygrid.org.uk/ontology#removing http://www.mygrid.org.uk/ontology#EMBL_nucleotide_sequence_database Soaplab service