SABmark—a benchmark for sequence alignment that covers the entire known fold space | Zendy

Ivo Van Walle | Zendy; Ignace Lasters | Zendy; Lode Wyns | Zendy

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SABmark—a benchmark for sequence alignment that covers the entire known fold space

Author(s) -

Ivo Van Walle,

Ignace Lasters,

Lode Wyns

Publication year - 2004

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bth493

Subject(s) - fold (higher order function) , benchmark (surveying) , multiple sequence alignment , similarity (geometry) , structural alignment , sequence alignment , alignment free sequence analysis , sequence (biology) , computer science , cover (algebra) , set (abstract data type) , space (punctuation) , algorithm , combinatorics , mathematics , artificial intelligence , biology , peptide sequence , genetics , geography , cartography , mechanical engineering , engineering , image (mathematics) , gene , programming language , operating system

The Sequence Alignment Benchmark (SABmark) provides sets of multiple alignment problems derived from the SCOP classification. These sets, Twilight Zone and Superfamilies, both cover the entire known fold space using sequences with very low to low, and low to intermediate similarity, respectively. In addition, each set has an alternate version in which unalignable but apparently similar sequences are added to each problem.

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