MUSET: set of utilities for constructing abundance unitig matrices from sequencing data.

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Unitig matrices extend the concept of k-mer matrices by merging overlapping k-mers that unambiguously belong to the same sequence. MUSET addresses the limitations of current software by integrating k-mer counting and unitig extraction to generate unitig matrices containing abundance values, as opposed to only presence-absence in previous tools. These matrices preserve variations between samples while reducing disk space and the number of rows compared to k-mer matrices. We evaluated MUSET's performance using datasets derived from a 618-GB collection of ancient oral sequencing samples, producing a filtered unitig matrix that records abundances in <10 h and 20 GB memory.\nAVAILABILITY AND IMPLEMENTATION: MUSET is open source and publicly available under the AGPL-3.0 licence in GitHub at https://github.com/CamilaDuitama/muset. Source code is implemented in C++ and provided with kmat_tools, a collection of tools for processing k-mer matrices. Version v0.5.1 is available on Zenodo with DOI 10.5281/zenodo.14164801.", "claims": [{"id": "claim-data-access", "statement": "MUSET is open source and implemented in C++. It is provided with kmat_tools, a collection of tools for processing k-mer matrices. MUSET v0.5.1 is publicly available on Zenodo with DOI 10.5281/zenodo.14164801. The latest available version with the instructions for installing and running it are available at https://github.com/CamilaDuitama/muset.", "kind": "methodological", "target": null, "evidence": [{"asset": "source:pmid:39898792", "locator": "sections[16] \"Data availability\" paragraph 2", "quote": "MUSET is open source and implemented in C++. It is provided with kmat_tools, a collection of tools for processing k-mer matrices. MUSET v0.5.1 is publicly available on Zenodo with DOI 10.5281/zenodo.14164801. 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