Provider:
GenOuest
Location:
FRANCE
Submitter / Source:
anthony.bretaudeau (7 months ago)
Base URL:
http://webservices.genouest.org/opal2/services/Tuiuiu
WSDL Location:
http://webservices.genouest.org/typedservices/Tuiuiu.wsdl(download last cached WSDL file)
Documentation URL(s): anthony.bretaudeau (7 months ago)http://training.genouest.org/claroline/claroline/learnPath/learningPathList.php?cidReset=true&cidReq;=TUIUIU
Login to add a documentation URL Description(s): anthony.bretaudeau (7 months ago)Tuiuiu removes from a sequence or from a set of sequences areas as large as possible that do not contain researched repeats.
Tuiuiu is used as a preliminary step before applying a multiple local aligner tool.
OPTIONS:
–excellent|–good : algorithm used (default is excellent)
–mono|–multi : number of sequences (default is multi)
-w value : length of the window (default 100)
-e value : number of errors (substitutions, insertions and deletions) between two windows (default 12)
-r value : number of window searched (default 8)
-k value : length of the k-mers (default 6 decreasing to a good threshold)
-c : ask to check direct AND reverse complement strands
-N {0 1 2} :
2: Write Ns instead of filtered nucleotides, (default)
1: Concatenate concerved fragments, separated with one ‘N’
0: Concatenate concerved fragments
Login to add a description License(s): None Login to add license info Cost: anthony.bretaudeau (7 months ago)free
Login to add cost info Usage Conditions: No info yet Login to add usage conditions info Contact Info: anthony.bretaudeau (7 months ago)support@genouest.org
Login to add contact info Publications: for this service. This can be a URI to the publication and/or a DOI. anthony.bretaudeau (7 months ago)P. Peterlongo, G. Sacomoto, A. Pereira do Lago, N. Pisanti, M.-F. Sagot Lossless filter for multiple repeats with bounded edit distance
BMC Algorithms for Molecular Biology 2009, 4:3 doi:10.1186/1748-7188-4-3
Login to add publication info Citations: None Login to add a citation