Biocompile documentation

Biocompile at a glance

Biocompile is a research workspace for life-science R&D teams with an electronic lab notebook built in, made by Biocompile, Inc.

• Electronic lab notebook: experiments with structured steps and rich-text notes, protocols published as frozen versions that experiments bind to, electronic signatures that lock a record, and roles at organization, team and project level.
• Ask questions in plain language about files you upload. There is no schema to fill in first.
• Analysis runs as real Python and R code in a private sandbox, with Bioconductor available for standard genomics work. The code is shown alongside the result.
• Data is stored in Europe and everything uploaded is encrypted. Research data is never used to train models and is never shared with another customer.
• Literature search across PubMed, arXiv, bioRxiv, OpenAlex and Semantic Scholar, plus patent search filtered by classification, assignee and country. Every answer links back to the source it came from.
• More than twenty biological databases are reachable from the same place, including UniProt, PDB, Ensembl, NCBI, Reactome, ChEMBL, gnomAD, ClinVar and GTEx.
• Decisions, dead ends and open questions are recorded on the project rather than in a chat log, with evidence links and a hash-chained audit trail.
• Every entry shows whether a person asserted it or the assistant proposed it. The assistant proposes changes to a project and a person reviews them, unless that person has switched on Auto Mode, which applies the assistant's contributions without asking.

What we are building next

• Connectors to Google Drive, Zotero and Mendeley are in testing, so research can be worked with where it already lives. Until they reach your workspace, files come in by upload.
• Connections to ELN and LIMS systems such as Benchling, to laboratory instruments and to in-house databases are built together with the teams that use them, so the data stays in the system that keeps it.
• Capabilities a lab needs inside Biocompile itself, such as sample and inventory tracking, are built with the first teams that ask for them.

There is no migration: teams keep their ELN, LIMS and databases, and Biocompile connects to them rather than replacing them. If your research needs a connection or a capability that is not here yet, we are glad to build it with you. Tell us what your research needs.