Databases on the HPCC
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NOTE: This page is a work in progress. Some information is subject to change.
Databases
The following is a list of databases maintained by the HPCC. Due to the fairly large nature of the databases, we cannot commit to storing databases forever, so a retention period is put in place. For projects that require older databases, please plan to mirror the database to your own storage.
| Database | Download Frequency | Retention Length | Module Name | Download Location |
|---|---|---|---|---|
| NCBI nr | 6 months | 3 yrs | db-ncbi | https://ftp.ncbi.nlm.nih.gov/blast/db/ |
| NCBI nt | 6 months | 3 yrs | db-ncbi | https://ftp.ncbi.nlm.nih.gov/blast/db/ |
| NCBI core_nt | 6 months | 3 yrs | db-ncbi | https://ftp.ncbi.nlm.nih.gov/blast/db/ |
| NCBI swissprot | 6 months | 3 yrs | db-swissprot | https://ftp.ncbi.nlm.nih.gov/blast/db/ |
| NCBI nr_clustered_seq | 6 months | 3 yrs | db-ncbi | https://ftp.ncbi.nlm.nih.gov/blast/db/experimental/ |
| uniref | As released/Manual | 3 yrs | db-uniprot | https://ftp.uniprot.org/pub/databases/uniprot/ |
| pfam | As released/Manual | 3 yrs | db-pfam | https://ftp.ebi.ac.uk/pub/databases/Pfam/releases/ |
| CAZy | As released/Manual | 3 yrs | db-cazy | https://pro.unl.edu/dbCAN2/browse_download.php?path=Databases |
| interpro | TBD | TBD | TBD | TBD |
| UNITE | As released/Manual | 3 yrs | db-unite | https://unite.ut.ee/repository.php |
Last modified April 21, 2026: Added database page (bf1c2f9fd)