Author: Gao, James ZM; Li, Linda YM; Reidys, Christian M
Title: Inverse folding of RNA pseudoknot structures Document date: 2010_6_23
ID: 1lojd0xa_30
Snippet: Cross is an ab initio folding algorithm that maps RNA sequences into 3-noncrossing RNA structures. It is guaranteed to search all 3-noncrossing, s-canonical structures and derives some (not necessarily unique), loop-based mfe-configuration. In the following we always assume s ≥ 3. The input of Cross is an arbitrary RNA sequence s and an integer N. Its output is a list of N 3-noncrossing, s-canonical structures, the first of which being the mfe-.....
Document: Cross is an ab initio folding algorithm that maps RNA sequences into 3-noncrossing RNA structures. It is guaranteed to search all 3-noncrossing, s-canonical structures and derives some (not necessarily unique), loop-based mfe-configuration. In the following we always assume s ≥ 3. The input of Cross is an arbitrary RNA sequence s and an integer N. Its output is a list of N 3-noncrossing, s-canonical structures, the first of which being the mfe-structure for s. This list of N structures (C 0 , C 1 , ..., C N-1 ) is ordered by the free energy and the first list-element, the mfe-structure, is denoted by Cross(s). If no N is specified, Cross assumes N = 1 as default.
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