We provide a set of centrally-maintained scientific reference databases for Biowulf users. You can search through this data here. To request a new database or an update, please contact us at staff@hpc.nih.gov.
| Search by keyword | Searches through metadata using keywords |
| Search by filename | Searches through filenames where available |
| 2024-07-23 | NCBI nt Blast database | NCBI nonredundant comprehensive nucleotide database, compiled from Genbank, Refseq, TPA and PDB. (Blast database full path and name - /fdb/blastdb/nt ) |
| 2024-07-23 | Patent nucleotide sequences Blast db | Patent nucleotide sequences (Blast database full path and name - /fdb/blastdb/patnt ) |
| 2024-07-23 | PDB protein sequences Blast db | Protein Data Bank sequences. (Blast database full path and name - /fdb/blastdb/pdbaa ) |
| 2024-07-23 | Swissprot Blast database | Curated, highly-annotated protein sequence database (Blast database full path and name - /fdb/blastdb/swissprot ) |
| 2024-07-23 | taxonomy | The Taxonomy Database is a curated classification and nomenclature for all of the organisms in the public sequence databases. |
| 2024-07-22 | Betacoronavirus | Blast database of Betacoronavirus nucleotide sequences. (Blast database full path and name - /fdb/blastdb/Betacoronavirus) |
| 2024-07-22 | NCBI nr Blast database | NCBI nonredundant comprehensive protein database, compiled from GenBank CDS translations, PDB, Swiss-Prot, PIR, and PRF (Blast database full path and name - /fdb/blastdb/nr ) |
| 2024-07-20 | PDB nucleotide sequences Blast db | Protein Data Bank nucleotide sequences. (Blast database full path and name - /fdb/blastdb/pdbnt ) |
| 2024-07-16 | VEP | VEP determines the effect of your variants (SNPs, insertions, deletions, CNVs or structural variants) on genes, transcripts, and protein sequence, as well as regulatory regions. |
| 2024-07-09 | I-TASSER ITLIB | I-TASSER Template Library for Protein Structure and Function Prediction |
| 2024-07-03 | LD Scores | A minimal set of files necessary to run LDSC, as well as a low-frequency variants model applied to UK Biobank SNPs. See /fdb//ldsc/readme_baseline_versions for details. Additional data are available on a requester-pays basis from https://console.cloud.google.com/storage/browser/broad-alkesgroup-public-requester-pays |
| 2024-05-21 | ensembl | Ensembl is a genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. |
| 2024-05-20 | diamond | Select reference databases for the diamond application |
| 2024-05-05 | UCSC goldenPath | The UCSC Genomics Institute maintains a broad collection of vertebrate and model organism assemblies and annotations, along with a large suite of tools for viewing, analyzing and downloading data. |
| 2024-05-03 | GATK resource bundles | [Not available] |
| 2024-05-03 | Metaphlan Databases | Metaphlan database files |
| 2024-05-01 | HUMAnN Reference Data | Reference data for the HUMAnN pipeline |
| 2024-04-02 | TomoTwin Models | Models for the particle picking software TomoTwin |
| 2024-03-21 | dorado models | Models for the dorado basecaller by ONT |
| 2024-03-15 | Reference data for the cellranger pipeline | References for the 10x Genomics cellranger pipeline |