Lab Command

✦ Hypatia · Learning Machine
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Research Queue
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Genes
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Studies
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Datapoints
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Peptides
πŸ“Š Lab Command Center
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Mega Research
One-click everything: fires the Gene Megaforge + Peptide Megaforge + Research Harvester + Gene Discovery + Peptide Sweep side-by-side. Internet research β†’ specialists β†’ writer β†’ humanizer β†’ critic β†’ atom dedup, across every card. Progress bar rolls up from all 5 background jobs.
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Card Backups
Point-in-time snapshots of cards.jsonl. Every Mega Research run auto-snapshots first so you can roll back a single card or the whole file if the AI rewrites something in a way you don't like. Retention is hourly 24h β†’ daily 7–30d β†’ weekly forever.
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πŸ§¬βš–οΈ
Gene Actionability Tools HEPHAESTUS-SPEC
Three direct-fire tools that share the same task-runner as the πŸ”₯ button. Actionability Stack runs ClinVar + gnomAD + CPIC + PharmGKB + 5-axis rescore across every gene card. Coverage Audit grades every gene + peptide card on field completeness and surfaces the weakest 12 in each class. Prosecutor Sweep walks every existing report through report_prosecutor_v1; auto-flips the v2 flag at 100% pass.
πŸ“œ Doctrine
πŸ§¬βš–οΈ
Gene Actionability Tools HEPHAESTUS-SPEC
Three direct-fire tools that share the same task-runner as the πŸ”₯ button. Actionability Stack runs ClinVar + gnomAD + CPIC + PharmGKB + 5-axis rescore across every gene card. Coverage Audit grades every gene + peptide card on field completeness and surfaces the weakest 12 in each class. Prosecutor Sweep walks every existing report through report_prosecutor_v1; auto-flips the v2 flag at 100% pass.
πŸ“œ Doctrine
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Supplement Dedup (Safe)
Collapses char-exploded / sentence-fragment junk and caps every card's supplement_stack at 12, peptide_recommendations at 8. Preserves entries tagged repeatable:true or keep_variant:true, distinct magnesium / curcumin forms, and anything with dose-specific rationale, so intentional duplicates survive. Also runs automatically every 6h.
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Pathway Explorer
3D gene network with bridge detection, interaction strength, and 🚌 Magic School Bus narrated tours.
Open Explorer β†’
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Lab Team Chat
Roundtable with the seven specialists β€” Librarian, Clinician, Variant Interpreter, Pathway Weaver, Biomarker Coach, Evolution Scribe, Protocol Designer.
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Lab Notes
Voice sessions turn into clickable notebook entries β€” genes, peptides, PMIDs auto-extracted + expanded by the lab team.
πŸ“‹ Card Manager Loading...
GenersIDCategoryTierConfEnvπŸ’ŠπŸ§¬StatusActions
πŸ§‘β€πŸ”¬ Lab Roundtable
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Lab Team
Welcome to the Lab Roundtable! Ask me about any gene, variant, pathway, biomarker, or peptide. The right specialist will jump in β€” Genetic Researcher for gene questions, Pathway Analyst for connections, Biomarker Specialist for lab values, and more. Try asking: "What's the deal with MTHFR?"
πŸ† Lab Leaderboard β€” Who's Feeding the Brain?
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πŸ—£οΈ Latest Trash Talk
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πŸ” Study Scraper
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πŸ“£ Study Updates
🚨 Alerts
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πŸŽ“ Today's Learning
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πŸ’Š Regimen
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πŸ“Š Retention
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πŸ“š Research Desk
Drop research here for the lab team. Hypatia can assign via voice chat.
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πŸ““ Voice Lab Notebook 🎀 New from Mel
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πŸ‘ˆ Select a voice note (or a dossier), or hit 🎀 Mel / πŸ”Š Hypatia in voice chat and tap πŸ§ͺ Lab Notes.

Genes, SNPs, peptides, pathways, doses and PMIDs get auto-extracted as clickable chips; the lab team will expand them automatically.
🧬 Pathway Coverage Loading...
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Coverage
Geneius Gene Coverage
Tracking - genes across - pathway clusters. - covered, - needed.
βœ… Covered ⚠️ Needed 🌟 WGS Recommended
🧩 Pathway Clusters
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πŸ“Š Test Type Comparison
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🧩 Card Coverage
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πŸ“Š Bio Data Observability Loading…
Every call to bio_data_fetcher_v1 is logged to state/lab/bio_data_telemetry.jsonl. Admin+public traffic both counted. Auto-refresh 60s.
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⏱ Call volume β€” last 24 hours
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πŸ“Œ Per-action
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πŸŒ™ Nightly smoke
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πŸ“° Evidence Freshness
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πŸ”„ ClinVar / OpenTargets Deltas
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🧠 Specialist Memory Loading…
Every Lab Roundtable specialist keeps a per-entity note log at state/lab/specialist_memory/<slug>/<entity>.jsonl. Browse, inspect, and prune a specialist's memory here β€” useful when a bad note starts poisoning future roundtables.
Specialists
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Entities
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Notes
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πŸ›‘οΈ Lab Ops Loading…
πŸ”§ Engineering pipeline (last 24h)
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πŸ•“ Scheduled jobs
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πŸ“œ Admin audit log
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πŸ’΅ OpenAI cost
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πŸ“œ Evidence ClinVar Β· ClinGen Β· CPIC Β· PharmGKB Β· gnomAD
Counts pulled from state/gene-console/annotations/cache/<source>/ and state/gene-console/conflicts/. Source-of-truth: the spec-defined state/agents/source_registry.json.
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ClinVar
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ClinGen
internal scoring
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CPIC
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PharmGKB
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gnomAD
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Source Conflicts
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Recent conflicts
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βš–οΈ Actionability ClinGen-style 5-axis tiers
Every card carries a 5-axis actionability_score alongside the legacy actionability_tier (1–4). Tier A = clinically actionable, B = wellness/lab follow-up, C = research-only, D = suppress / appendix only.
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Tier A
clinician_discussion_required
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Tier B
cautious_actionable
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Tier C
educational_context
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Tier D
suppress_or_appendix
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Tier A findings (top 12)
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πŸ›‘ Safety prosecutor + green/yellow/orange/red gate
Every report runs through report_prosecutor_v1 before save. Hard-blocks: dosage / prescription change / disease diagnosis / mutation correction / cure language / VUS-as-actionable. Verdicts are persisted at state/gene-console/prosecutor/<token>.json.
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Reports cleared
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Reports blocked
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Dosage hits
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Med-conflict alerts
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Recent prosecutor verdicts
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πŸ“‘ Research Updates database freshness + new evidence per gene
Combines evidence_freshness_radar_v1's scan with variant_alert_v1's hourly study delta. Tracks the registered sources from state/agents/source_registry.json.
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PubMed (local)
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ClinVar cache
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CPIC table
curated
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PharmGKB table
curated
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gnomAD
live REST
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Annotation cache
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Recent variant alerts
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