linushansen12/Chronic-Illness-Workbench

target-open-targets

Open Targets gene-disease association lookup via the official MCP connector. One GraphQL round trip per gene. Emits Tier C informational evidence.

world-evidence-watch

Standing watcher. Reruns the trial, literature (PubMed + bioRxiv), and ClinVar-relookup specialists against the FIXED profile and diffs against the stored baseline. Empty diff -> one calm "no significant changes" timeline entry.

literature-synthesis

PubMed + bioRxiv search for recent literature on the patient's genes and diagnosis. bioRxiv preprints are first-class (earliest signal). Emits Tier C; the LLM only summarizes genuine free text, it never asserts facts.

trial-matcher

ClinicalTrials.gov v2 search for trials relevant to the patient's diagnosis and genes. Eligibility is surfaced as "may be eligible — confirm with your care team", never confirmed. Emits Tier C.

next-data-variant-confidence

Uncertainty-ranked gap report (spec §8b). For an unresolved (Tier B) variant, names that the analysis can't resolve it and attributes the gap to a missing input — a documented family history — that would let the analysis weight it. Never a test order.

next-data-pgx-coverage

Uncertainty-ranked gap report (spec §8b). Names a pharmacogenomic module the analysis could NOT complete and attributes the gap to a specific missing input (a genotype). Never tells the patient to get a test — it is a report on the tool's blind spots for the…

pgx-cpic-lookup

Deterministic CPIC pharmacogenomics lookup over the patient's current medications. Pure code, no LLM. Emits Tier A/B for CPIC Level A/B gene-drug pairs; flags a missing genotype instead of ever directing a dose change.

variant-clinvar-lookup

Deterministic ClinVar classification lookup for the patient's variants. Pure code, no LLM. Emits Tier A for Pathogenic/Likely-Pathogenic at >=2-star review, Tier B for VUS.