A cloud-based platform that lets researchers run large-scale genomic sequence alignments in parallel using the official NCBI BLAST+ toolkit. It handles batch uploads of up to 100 sequence files at once, adds AI-assisted result reporting, and presents species matches through clear, interactive charts.

The Automated BLAST Pipeline is an interactive Bash 4+ script that simplifies local NCBI BLAST+ workflows on Ubuntu by eliminating the need to memorize complex command-line arguments. You run the script, and it guides you through a menu-driven process that automatically handles dependency installation, detects nucleotide or protein sequence types, and restricts your options to only valid BLAST programs. To maximize compute efficiency, the pipeline fingerprints source FASTA files to reuse existing databases, utilizes all available CPU cores, and performs the search exactly once to generate multiple formats, including sortable HTML reports and data-ready TSV files.