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HTTPS and S3 links to genomic index files freely available in the AWS cloud

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SPUMONI

SPUMONI indexes

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.

The exact accession ids used for the reference genomes in the Zymo mock community indexes can be found here (s3 link).

Collection Date HTTPS URL S3 URL
Zymo mock community, one genome, matching strain March, 2021 positive.spumoni, null.spumoni positive.spumoni, null.spumoni
Zymo mock community, one genome, non-matching strain March, 2021 positive.spumoni, null.spumoni positive.spumoni, null.spumoni
Zymo mock community, pan-genome, with matching strain March, 2021 positive.spumoni, null.spumoni positive.spumoni, null.spumoni
Zymo mock community, pan-genome, without matcing strain March, 2021 positive.spumoni, null.spumoni positive.spumoni, null.spumoni
Human, one genome (T2T CHM13 v1.0) March, 2021 positive.spumoni, null.spumoni positive.spumoni, null.spumoni
Human, three genomes (T2T CHM13 v1.0, Ashv2.0, GRCh38) March, 2021 positive.spumoni, null.spumoni positive.spumoni, null.spumoni

SPUMONI is the work of Omar Ahmed, Massimiliano Rossi, Sam Kovaka, Michael C. Schatz, Travis Gagie, Christina Boucher, and Ben Langmead.