Blini: lightweight nucleotide sequence search and dereplication

TL;DR

Blini is a fast, memory-efficient tool for nucleotide sequence search and dereplication, aiding in the management of large sequence collections with high accuracy.

Contribution

It introduces a lightweight, efficient method for nucleotide sequence lookup and dereplication that outperforms existing tools in speed and memory usage.

Findings

Faster than existing tools on simulated data

Uses less RAM while maintaining accuracy

Effective for large sequence collections

Abstract

Blini is a tool for quick lookup of nucleotide sequences in databases, and for quick dereplication of sequence collections. It is meant to help clean and characterize large collections of assembled contigs or long sequences that would otherwise be too big to search with online tools, or too demanding for a local machine to process. Benchmarks on simulated data demonstrate that it is faster than existing tools and requires less RAM, while preserving search and clustering accuracy.