Alignment-free sequence comparison (II): theoretical power of comparison statistics.

Alignment-free sequence comparison (II): theoretical power of comparison statistics.

Rapid methods for alignment-free sequence comparison make large-scale comparisons between sequences increasingly feasible. Here we study the power of the statistic D2, which counts the number of matching k-tuples between two sequences, as well as D2*, which uses centralized counts, and D2S, which is...

Disgrifiad llawn

Manylion Llyfryddiaeth
Prif Awduron:	Wan, L, Reinert, G, Sun, F, Waterman, MS
Fformat:	Journal article
Iaith:	English
Cyhoeddwyd:	2010

Eitemau Tebyg

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Scaling statistical multiple sequence alignment to large datasets
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An algorithm for statistical alignment of sequences related by a binary tree.
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