BioResearcherDemo cases
Seven true-run scenarios driven by demos/run-demo.mjs (agent cases ran on opencode v1.18.29; the skills tree under test is pinned per-case in provenance.json). Every case carries objective checks, curated transcripts and commit-pinned artifacts in the repository.
The embedded reports below are the byte-exact HTML artifacts committed to the repo — the site renders the original files, it does not re-render them.
Deep research — BRCA1 DNA repair literature survey (English)
The bioresearcher-deep-research skill interviews-free light path decomposes a topic, queries PubMed via the biomcp MCP server, and writes a cited Markdown + HTML report (reports/<t…
Deep research — tumor immunotherapy survey driven by a Chinese prompt
Same deep-research skill, Chinese-language request (the connector's canonical zh example): the agent answers and reports in Chinese while querying English biomedical sources, citin…
Interview-first — clarifying questions before research starts
Without the no-interview prefix, the deep-research skill asks its clarifying-question batch as ONE turn and does not start researching — even under non-interactive `opencode run --…
PubMed weekly — updatefiles sample parsed into an Excel workbook
The bioresearcher-pubmed-weekly skill streams a (trimmed) weekly updatefiles archive — 6 <PubmedArticle> entries plus a <DeleteCitation> block — into one combined.xlsx workbook via…
Publication-grade structural figure — KRAS Switch I/II with 3-layer QA
Chains bioresearcher-python-setup-uv (uv env + pymol-open-source/matplotlib/pymupdf/numpy/pillow/biopython) and bioresearcher-plot-making to render fig1_kras_landscape (.pdf/.svg/.…
MCP tool tour — true request/response pairs from 8 core tools
Deterministic stdio JSON-RPC probe against the keyless biomcp@1.1.1 server: initialize handshake, paginated tools/list (all 41 pinned core tools present), then 8 scripted tools/cal…
MCP tool tour — the BRAF V600E variant-to-trials chain (zh notes)
Same deterministic probe mechanics, themed on the WorkBuddy connector's third zh example (查找 BRAF V600E 变异的相关药物与临床试验): variant -> gene -> drugs -> trials in four keyless calls with…
Replay guide and artifact index: demos/README.md