Building SeqBench: browser-based DNA/RNA/protein toolkit with batch, workflows, REST API + MCP

seqbench Team  • Peerlist

<h3>SeqBench is a browser-based DNA, RNA and protein sequence analysis toolkit built for batch processing, multi-tool workflows, and agent-driven automation via REST API and MCP.</h3><ul><li>Core Functionality: Provides essential sequence analysis utilities including reverse complement calculation, translation (six-frame), open reading frame (ORF) finding, GC content analysis, primer melting temperature (Tm) estimation, restriction site identification, in-silico PCR simulation, and CRISPR guide RNA design.</li><li>Privacy-Focused: A key feature is that most calculations are performed locally in the browser, ensuring that pasted sequences remain on the user's device and are not stored.</li><li>Advanced Workflows: Facilitates complex bioinformatics tasks through features like multiple sequence alignment (MSA) viewing, virtual gel electrophoresis simulation, variant comparison against references, and pairwise sequence alignment (global and local).</li><li>Design Tools: Includes specialized tools for designing PCR primers, site-directed mutagenesis primers, and simulating DNA assembly methods such as Gibson and Golden Gate cloning.</li><li>Data Handling: Offers tools for formatting and converting sequences between various formats (FASTA, GenBank, TSV), fetching sequences by accession number, and generating random sequences.</li><li>Automation: The platform supports automation through its Model Context Protocol (MCP) server and a plain JSON REST API, allowing integration with AI agents and custom code for reproducible workflows.</li><li>User Experience: Features intuitive interfaces for tasks like plasmid visualization and annotation, Sanger trace viewing, and sequence characterization, alongside guides and reference tables for learning and quick lookups.</li></ul>