%0 Generic %A Schröder, Adrian %A Eichner, Johannes %A Supper, Jochen %A Eichner, Jonas %A Wanke, Dierk %A Henneges, Carsten %A Zell, Andreas %D 2010 %T Similarity score calculation methods and their parameters. %U https://plos.figshare.com/articles/dataset/_Similarity_score_calculation_methods_and_their_parameters_/486765 %R 10.1371/journal.pone.0013876.t002 %2 https://plos.figshare.com/ndownloader/files/816399 %K methods %X

For each feature the method, its parameters and, when needed, the substitution matrix are provided. The parameters and give the gap opening and gap extension penalties and gives a similarity distance threshold below which two amino acids are still considered a match. The parameters and , are parameters of the local alignment and mismatch kernel, respectively. The parameter defines the length of the flanking regions considered for the alignment.

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