swnn Virginia Bioinformatics Institute http://pathport.bioinformatics.vt.edu:6565/axis/services/timelogicsmithwaterman http://www.vbi.vt.edu/~pathport/services/wsdls/timelogicsmithwaterman.wsdl DeCypher Smith-Waterman Search Nucleic Query vs. Nucleic Database swnn <s:arbitrarywsdl xmlns:s="http://org.embl.ebi.escience/xscufl/0.1alpha"><s:wsdl>http://www.vbi.vt.edu/~pathport/services/wsdls/timelogicsmithwaterman.wsdl</s:wsdl><s:operation>swnn</s:operation></s:arbitrarywsdl> DeCypher Smith-Waterman Search Nucleic Query vs. Nucleic Database in8:maxscore swnnRequest Maximum scores. For example 30 30 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in2:output_format swnnRequest Specify output format. Select one of the 3 possible values:XML |Plain Text |NCBI Text | XML false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in0:query_sequence swnnRequest In addition to Nucleotide sequence in fasta format or without any format, the query sequence can also be files that contain lists of:'1.genbankids or accession''2.fasta files with multiple sequences' false http://www.mygrid.org.uk/ontology#nucleotide_sequence http://www.mygrid.org.uk/ontology#fasta_format String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in4:queryfilter swnnRequest Select"Yes"to filter your query or"No"to avoid this process. Yes false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in6:significance swnnRequest Indicates how statistical significance is to be calculated. Select one of the 4 possible values: EVALUE |PSCORE |ZSCORE |ERATING EVALUE false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in1:dbList swnnRequest Blast database list. Select one of the following database:NCBI nt (CCF) |NCBI alu.n (CCF) |NCBI drosoph.nt (CCF) |NCBI ecoli.nt (CCF) |NCBI env_nt (CCF) |NCBI est_human (CCF) |NCBI est_mouse (CCF) |NCBI est_others (CCF) |NCBI gss (CCF) |NCBI htgs (CCF) |NCBI human_genomic (CCF) |NCBI igSeqNt (CCF) |NCBI mito.nt (CCF) |NCBI month.est_human (CCF) |NCBI month.est_mouse (CCF) |NCBI month.est_others (CCF) |NCBI month.gss (CCF) |NCBI month.htgs (CCF) |NCBI month.nt (CCF) |NCBI other_genomic (CCF) |NCBI patnt (CCF) |NCBI pdbnt (CCF) |NCBI sts (CCF) |NCBI vector (CCF) |NCBI yeast.nt (CCF) NCBI nt (CCF) false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in5:querysearch swnnRequest Select one of the following 3 options for your query sequence:"Use both the Direct and Complement Strands"|"Use the Direct Strand"|"Use the Complement Strand" Use both the Direct and Complement Strands false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in3:algorithm_variation swnnRequest Algorithm variation. Select one of the 3 possiblealgorithm variation: Local (Standard) |Semi-Global |Double Affine | Local (Standard) false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in9:maxalign Maximum alignment. For example 20 20 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in10:openpenalty Open penalty. For example 11 11 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in11:extendpenalty Extend penalty. For example 1 1 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in12:matrix Weight Matrix Name. Select one of the following option: asymhi |asymhif |asymlamb |asymlamf |asymlow |asymlowf |blastn |nuc4x4hb |nucblast | blastn false String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in13:da_gap_length Minimum length of a gap where the first gap penalty is applied.For example 50 50 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in14:second_extend_penalty Penalty for extending a gap as the gap grows larger than the DA gap length. 0 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter in7:threshold Specify the minimum criteria that search results must meet. For example 0.01 0.01 false http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter swnnReturn swnnResponse Return a list of sequence with best scores in specified format false http://www.mygrid.org.uk/ontology#smith_waterman_similarity_report String http://www.mygrid.org.uk/mygrid-moby-service#simpleParameter http://www.mygrid.org.uk/ontology#pairwise_local_aligning http://www.mygrid.org.uk/ontology#Smith-Waterman_sequence_alignment_algorithm WSDL service