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. 2023 Apr 6;24:69. doi: 10.1186/s13059-023-02910-3

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© The Author(s) 2023

Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 1 — Schematic overview of nanopore raw signal data management with slow5tools. The software permits lossless data conversion from FAST5-to-SLOW5 (f2s command) or SLOW5-to-FAST5 (s2f command). Slow5tools executes a range of common operations for data management, including combining multiple SLOW5/BLOW5 datasets (merge or cat commands) or splitting a dataset into multiple parts (split command). The index command creates an index file for a SLOW5/BLOW5 file, which then enables a specific record(s) to be quickly fetched from the file using the get command. The view command is used to view the contents of a binary BLOW5 file/s in human-readable SLOW5 format and convert datasets between SLOW5 and BLOW5, or between different BLOW5 compression types. Finally, slow5tools can check the integrity of a SLOW5/BLOW5 file (quickcheck) or generate simple summary statistics describing the dataset (stats)