BBTools Interactive Web Services

These web-based tools provide interactive interfaces for popular BBTools programs. No installation required - just paste or upload your sequences and get instant results!

Note: Services marked with 🚧 UNDER CONSTRUCTION are in development and not yet publicly available. The interfaces are ready for preview, but backend servers have not been deployed.

QuickClade

Rapid taxonomic classification of genomic sequences using pre-computed k-mer databases. Identify organisms in seconds!

BBSketch

Fast sequence similarity search against reference databases. Find the closest matching organisms for your sequences.

Taxonomy Lookup

Search and explore the NCBI taxonomy tree. Find taxonomic IDs, lineages, and relationships between organisms.

Alignment Visualizer

Interactive visualization of sequence alignments. Compare different alignment algorithms and see their behavior.

SAM Format Decoder

Decode SAM/BAM alignment lines and flags. Paste any SAM line to see detailed explanations of all fields, flags, CIGAR operations, and optional tags.

Assembly Statistics 🚧 UNDER CONSTRUCTION

Calculate comprehensive assembly statistics including N50, L50, GC content, scaffold counts, and quality metrics.

Translate6Frames 🚧 UNDER CONSTRUCTION

Translate DNA/RNA sequences to amino acids in all six reading frames. Identify potential protein-coding regions.

CallGenes 🚧 UNDER CONSTRUCTION

Prokaryotic gene prediction for bacteria, archaea, viruses, and mitochondria. Find genes, rRNAs, and tRNAs.

Random Genome Generator 🚧 UNDER CONSTRUCTION

Generate synthetic genomes with specified characteristics for testing and educational purposes.

Genome Mutator 🚧 UNDER CONSTRUCTION

Simulate genome mutations with controlled substitution, insertion, and deletion rates. Test variant callers.

About These Services

Features

No Installation: Run directly in your browser
File Upload Support: Drag and drop or browse for files up to 100MB
Fast Processing: Powered by JGI's high-performance servers
Secure: Your data is processed in memory and not stored

Data Limits

Text input: Up to 15MB when pasting directly
File upload: Up to 100MB per file
Processing time: Most queries complete in under 30 seconds

Command-Line Access

These services are also available via command-line for programmatic access and larger datasets:

# QuickClade/SendClade command-line access
sendclade.sh in=sequences.fasta

# BBSketch command-line access
sendsketch.sh in=contigs.fa

# Full BBTools suite available at:
# https://sourceforge.net/projects/bbmap/

Getting Help

For questions about these web services or BBTools in general:

📧 Email: bbtools@lbl.gov
📚 Documentation: BBTools Docs
💬 Forum: JGI BBTools Support