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bioRxiv · 10.1101/2020.04.05.026732

Seqpare: a self-consistent metric of similarity between genomic interval sets

Feng, S. C.·Sheffield, N. C.·Feng, J.
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Abstract

SummarySearching genomic interval sets produced by sequencing methods has been widely and routinely performed; however, existing metrics for quantifying similarities among interval sets are inconsistent. Here we introduce Seqpare, a self-consistent and effective metric of similarity and tool for comparing sequences based on their interval sets. With this metric, the similarity of two interval sets is quantified by a single index, the ratio of their effective overlap over the union: an index of zero indicates unrelated interval sets, and an index of one means that the interval sets are identical. Analysis and tests confirm the effectiveness and self-consistency of the Seqpare metric. Availabilityhttps://github.com/deepstanding/seqpare Contactjf.xtable@gmail.com

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Feng, S. C., Sheffield, N. C., Feng, J.. 2020-04-06. Seqpare: a self-consistent metric of similarity between genomic interval sets. https://doi.org/10.1101/2020.04.05.026732

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