| Function matchRefinement Refines (i.e. cuts into smaller parts) a set of pairwise segment matches in such a way that none of the segments partly overlap. They are either identical (fully overlapping) or non-overlapping. Refines (i.e. cuts into smaller parts) a set of pairwise segment matches in such a way that none of the segments partly overlap. They are either identical (fully overlapping) or non-overlapping. matchRefinement(matches,stringSet,scoringScheme,refinedGraph) matchRefinement(matches,stringSet,refinedGraph) matchRefinement(matches,stringSet,scoringScheme,refinedGraph) matchRefinement(matches,stringSet,refinedGraph) Parameters
matches | The set of matches. The set of matches. The set of matches. The set of matches.
scoringScheme | The scoring scheme used to score the refined matches (scores are attached to edges in the refined Alignment Graph). The scoring scheme used to score the refined matches (scores are attached to edges in the refined Alignment Graph). Types: Score Remarks: If no scoring scheme is given, all edges get weight 1. If no scoring scheme is given, all edges get weight 1.
stringSet | The StringSet containing the sequences which the matches lie on. The StringSet containing the sequences which the matches lie on. Types: StringSet
refinedGraph | The resulting refined set of matches stored in a graph. The resulting refined set of matches stored in a graph. Types: Alignment Graph
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