NanoCLUST: a species-level analysis of 16S rRNA nanopore sequencing data

SUMMARY: NanoCLUST is an analysis pipeline for the classification of amplicon-based full-length 16S rRNA nanopore reads. It is characterized by an unsupervised read clustering step, based on Uniform Manifold Approximation and Projection (UMAP), followed by the construction of a polished read and subsequent Blast classification. Here, we demonstrate that NanoCLUST performs better than other state-of-the-art software in the characterization of two commercial mock communities, enabling accurate bacterial identification and abundance profile estimation at species-level resolution. AVAILABILITY AND IMPLEMENTATION: Source code, test data and documentation of NanoCLUST are freely available at https://github.com/genomicsITER/NanoCLUST under MIT License. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.