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 |
| 2025-11-05 | ensembl | Ensembl is a genome browser for vertebrate genomes that supports research in comparative genomics, evolution, sequence variation and transcriptional regulation. |
| 2025-03-11 | Betacoronavirus | Blast database of Betacoronavirus nucleotide sequences. (Blast database full path and name - /fdb/blastdb/Betacoronavirus) |
| 2025-03-11 | 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 ) |
| 2025-03-11 | Patent nucleotide sequences Blast db | Patent nucleotide sequences (Blast database full path and name - /fdb/blastdb/patnt ) |
| 2025-03-11 | PDB nucleotide sequences Blast db | Protein Data Bank nucleotide sequences. (Blast database full path and name - /fdb/blastdb/pdbnt ) |
| 2025-03-11 | PDB protein sequences Blast db | Protein Data Bank sequences. (Blast database full path and name - /fdb/blastdb/pdbaa ) |
| 2025-03-11 | Swissprot Blast database | Curated, highly-annotated protein sequence database (Blast database full path and name - /fdb/blastdb/swissprot ) |
| 2025-03-11 | taxonomy | The Taxonomy Database is a curated classification and nomenclature for all of the organisms in the public sequence databases. |
| 2025-03-10 | 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 ) |
| 2025-03-06 | 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. |
| 2025-03-03 | NCBI SRA Refseq data | NCBI SRA Refseq data |
| 2025-02-24 | Reference data for the cellranger-arc pipeline | References for the 10x Genomics cellranger-arc pipeline |
| 2025-02-20 | nf-core singularity images | Here includes several singularity images of nf-core pipelines. Eg. rnaseq, sarek Other pipelines are going to be added. |
| 2025-02-10 | Network parameters for ESM | [Not available] |
| 2025-01-22 | dorado models | Models for the dorado basecaller by ONT |
| 2024-12-20 | Interproscan databases | Databases for our local interproscan implementation. Database versions are tied to interproscan releases |
| 2024-12-12 | Standard databases for foldseek | foldseek provided databases for AlphafoldDB (Swiss-Prot, Proteome, and others) |
| 2024-11-19 | CADD | CADD is a tool for scoring the deleteriousness of single nucleotide variants as well as insertion/deletions variants in the human genome. |
| 2024-11-18 | biogans | BioGANs is a novel application of Generative Adversarial Networks (GAN) to the synthesis of cells imaged by fluorescence microscopy. |
| 2024-11-18 | metawrap | MetaWRAP is a modular pipeline for shotgun metagenomic data analysis. |