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Seqpare: a self-consistent metric of similarity between genomic interval sets [version 1; peer review: 1 approved, 1 approved with reservations]
- Source :
- F1000Research. 9:581
- Publication Year :
- 2020
- Publisher :
- London, UK: F1000 Research Limited, 2020.
-
Abstract
- Searching 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.
Details
- ISSN :
- 20461402
- Volume :
- 9
- Database :
- F1000Research
- Journal :
- F1000Research
- Notes :
- [version 1; peer review: 1 approved, 1 approved with reservations]
- Publication Type :
- Academic Journal
- Accession number :
- edsfor.10.12688.f1000research.23390.1
- Document Type :
- software-tool
- Full Text :
- https://doi.org/10.12688/f1000research.23390.1