SPUMONI

SPUMONI is a fast read classification tool for targeted nanopore sequencing. It uses a compressed r-index together with a streaming matching-statistics algorithm and statsitical test to classify reads.

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Topics

Sequence assembly Proteomics experiment Sequencing Metagenomics Model organisms

Details

License:: GPL-3.0
Programming Languages:: C++, Python
Added:: 12/6/2021
Last Updated:: 12/6/2021

Operations

Publications

Ahmed O, Rossi M, Kovaka S, Schatz MC, Gagie T, Boucher C, Langmead B. Pan-genomic matching statistics for targeted nanopore sequencing. iScience. 2021;24(6):102696. doi:10.1016/j.isci.2021.102696. PMID:34195571. PMCID:PMC8237286.

DOI: 10.1016/j.isci.2021.102696

Funding: - National Human Genome Research Institute: R01HG011392 - Directorate for Biological Sciences: DBI-2029552 - Natural Sciences and Engineering Research Council of Canada: RGPIN-07185-2020 - National Science Foundation: DBI-1350041

Links

Other

https://benlangmead.github.io/aws-indexes/spumoni

Issue tracker

https://github.com/oma219/spumoni/issues

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