Seqpare is a self-consistent metric and tool for comparing sequences based on the total effective overlaps of their interval sets. With this metric, the similarity of two interval sets is quantified by a single index, which directly represents the percentage of their effective overlapping: a similarity index of zero indicates totally unrelated sequences, and an index of one means that the interval sets are exactly the same.
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Feng SC, Sheffield NC, Feng J.
Seqpare: a novel metric of similarity between genomic interval sets.
F1000Res. 2020 Jun 9;9:581. doi: 10.12688/f1000research.23390.2. PMID: 33500773; PMCID: PMC7808057.