HTTPS and S3 links to genomic index files freely available in the AWS cloud
| Home |
|---|
| Bowtie |
| HISAT |
| Kraken/Bracken |
| Centrifuge |
| SPUMONI |
| SPUMONI 2 |
SPUMONI 2 (GitHub repo) is a fast read classification tool that improves on the SPUMONI algorithm by integrating minimizer digestion, a sampled document array for multi-class classification, and improved support for both short and long reads.
Corresponding S3 URLs can be obtained by removing https://genome-idx.s3.amazonaws.com from the beginning of the URLs linked to above and replacing with s3://genome-idx.
| Collection | Date | HTTPS URL |
|---|---|---|
| Assembly contaminant pan-genome, SPUMONI 2 index | September, 2022 | tar.gz |
| E. coli 500 pan-genome, FASTAs | September, 2022 | tar.gz |
| Human assembly pan-genome, SPUMONI 2 index | September, 2022 | tar.gz |
| Zymo mock community pan-genome, SPUMONI 2 index | September, 2022 | tar.gz |
| 8-species SPUMONI 2 index, including sampled doc array | September, 2022 | tar.gz |
SPUMONI 2 is the work of Omar Ahmed, Massimiliano Rossi, Travis Gagie, Christina Boucher, and Ben Langmead.