ArticlebioRxiv : the preprint server for biology2025
Kaminari: a resource-frugal index for approximate colored
Article in bioRxiv : the preprint server for biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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6 authors.
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Abstract
Motivation: The problem of identifying the set of textual documents from a given database containing a query string has been studied in various fields of computing, e.g., in Information Retrieval, Databases, and Computational Biology. We consider the approximate version of this problem, that is, the result set is allowed to contain some false positive matches (but no false negatives), and focus on the specific case where the indexed documents are DNA strings. In this setting, state-of-the-art solutions rely on Bloom filters as a way to index all Methods and results: Here, we explore an alternative index design based on Software: The software is implemented in C++17 and available under the MIT license at github.com/yhhshb/kaminari. Reproducibility information and additional results are provided at github.com/vicLeva/benchmarks_kaminari.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.