Skip to main content

Parallelize BLAST searches by splitting the input

Project description

Parallelize BLAST searches by splitting the input and submitting jobs to a SLURM cluster.

The blast jobs are run on a SLURM queue with parallelization by input chopping. Not database chopping which requires message passing across the nodes like mpiblast does (when and if it works). Input chopping is fine as long as the database to search against fits in the RAM of the nodes. If the input is small and the database is large you can always switch them one for the other (in most cases) and apply input splitting.

For a usage example look at the test.py file.

Project details


Supported by

AWS AWS Cloud computing Datadog Datadog Monitoring DigiCert DigiCert EV certificate Facebook / Instagram Facebook / Instagram PSF Sponsor Fastly Fastly CDN Google Google Object Storage and Download Analytics Microsoft Microsoft PSF Sponsor Pingdom Pingdom Monitoring Salesforce Salesforce PSF Sponsor Sentry Sentry Error logging StatusPage StatusPage Status page