Welcome the JHU/APL Biological Sciences Datasets Directory

Reference Links

• TaxTriage
• Basestack
• Kraken2 databases to download or use
• Pre install session - metagenomics
• Kraken2
• Nextflow
• nf-core
• Docker
• Mytax2
• Pavian

Download all data here

• Download

Download kraken2 databases

• Test
• Standard Refseq 8 GB
• Viral (Refseq)
• Flukraken2
• All Others

Download a Reference FASTA

• Test Metagenomics References

Download Dummy Taxa Data

• Taxonomic Data
• Viral Genes
• Gene Data

Download Kraken2 Report File

• Long Reads
• Long Reads Classified Reads
• Short Reads
• Short Reads Classified Reads
• Long Reads Viral - Bad DB
• Short Reads Viral - Bad DB

Krona Outputs

• Long Reads Krona Output
• Short Reads Krona Output
• Long Reads Viral - Bad DB
• Short Reads Krona Viral - Bad DB

Fastp Outputs

• Long Reads Fastp Output
• Short Reads Fastp Output

Pavian

• Pavian Long and Short Run

TaxTriage Example Information

• TaxTriage Long and Short Run Report
• Example Execution Report
• Input Samplesheet (Test)