https://github.com/ctb/magsearch
Workflow and config files for searching (very) large public databases with sourmash sketches
https://github.com/ctb/magsearch
sourmash
Last synced: 6 months ago
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Workflow and config files for searching (very) large public databases with sourmash sketches
- Host: GitHub
- URL: https://github.com/ctb/magsearch
- Owner: ctb
- License: agpl-3.0
- Created: 2022-09-22T21:47:47.000Z (almost 4 years ago)
- Default Branch: main
- Last Pushed: 2023-08-28T12:39:44.000Z (almost 3 years ago)
- Last Synced: 2025-01-30T23:47:24.082Z (over 1 year ago)
- Topics: sourmash
- Language: Standard ML
- Homepage:
- Size: 2.81 MB
- Stars: 3
- Watchers: 2
- Forks: 0
- Open Issues: 9
-
Metadata Files:
- Readme: README.md
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README
# Search (very) large public databases with sourmash sketches
Run it like so:
```
snakemake -s magsearch.snakefile --configfile config.yml -j 32
```
Needs ~40 GB of RAM, 32 cores.
## To run "integration" test on farm, use:
```
snakemake -s magsearch.snakefile -j 2 --configfile config-test.yml
```
## License & authorship
This repository was originally forked from https://github.com/sourmash-bio/sra_search.
This software is under the AGPL license. Please see [LICENSE.txt](LICENSE.txt).
Authors:
Luiz Irber
N. Tessa Pierce-Ward
C. Titus Brown