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SkillsMP has collected 19 skills from monarch-initiative/dismech. Open a skill to review its source and details.
Showing 19 of 19 collected skills.
Skill for curating cancer and neoplastic disease entries in the dismech knowledge base. Use this skill when creating or enhancing cancer entries, adding oncogene/tumor suppressor pathophysiology, curating histopathology findings, adding targeted therapy…
Skill for initiating new disorder YAML files in the dismech knowledge base. Use this skill when the user asks to create a new disorder entry. Also useful for enhancing existing entries.
Add, validate, repair, or review evidence references and exact-quote snippets in dismech KB YAML and deep-research reports. Use for PMID, DOI, NCT, ICTRP, or structured-source evidence; reference-cache generation; snippet failures; title snippets; bracket…
Select, add, validate, review, or repair ontology bindings and derived term caches in dismech. Use when changing term IDs, canonical labels, preferred_term values, enum meaning mappings, phenotype, cell-type, biological-process, disease, anatomy, exposure, or…
Write the prose of a GitHub PR body, issue comment, review body, or review reply in this repo. Use before posting anything to GitHub — opening a PR, summarizing or triaging an issue, replying to a reviewer, reporting what a scan found, or explaining why you…
Instructions for reviewing a dismech PR, in particular PRs relating to disorder curation, either creating new dismech entries or updating existing ones.
Skill for creating a new mechanism module in kb/modules/ (a conserved pathological process that recurs across disorders). Use when the user asks to create/curate a module, add an Xogenesis (pathological-structure-formation) module, or factor a recurrent…
Create, edit, review, or audit dismech disease groupings in kb/groupings/*.yaml. Use for Grouping records, member unions, grouping_basis and grouping_rationale, membership_criteria boolean logic, criteria_semantics, differentiating_mechanisms, grouping…
Use when claiming the next disease to curate in dismech. Two-phase pick — open `claim`-labelled issues for what is already taken, then the `stubs/` queue for what is left — then files a `Curate <label> (MONDO:NNNNNNN)` claim issue assigned to the current…
Use when asked to curate the next N disease curation issues already assigned to the current GitHub user. Filters open issues to those where the user is the sole assignee and no PR exists yet, picks the first N, then dispatches /curate in parallel for each.…
Skill for populating the `classifications` top-level block of a dismech Disease entry. Covers Harrison's Part assignment, mechanistic nosology, lysosomal storage, IUIS immunodeficiency, channelopathy, and ICD-O morphology fields, with a lookup table from…
Skill for curating microbiome-related pathophysiology in the dismech knowledge base. Use this skill when adding dysbiosis mechanisms, ecological concepts (Anna Karenina, keystone taxa, colonization resistance), SCFA/metabolite pathways, and linking microbial…
Use ONLY when the user explicitly asks to orchestrate parallel external agents (Codex or Claude Code) in tmux sessions via tp (tmux-pilot). Or when a user tells you that you're the boss or orchestrator. You can also use this if you are an operclaw agent.…
Skill for analyzing and improving compliance in the dismech knowledge base. Use this skill when checking disorder file completeness, identifying missing fields (ontology terms, evidence, descriptions), understanding weighted priority scoring, and…
Generate dismech definitions from OHDSI/ATLAS cohort definitions or other computable phenotype logic. Use when converting OMOP cohort JSON, drafting PheKB-/OHDSI-style phenotype algorithms, or mapping FHIR/CQL/OMOP rules into dismech `definitions` blocks.
Review a provider-generated mechanistic-hypothesis exploration report and record a structured, source-anchored assessment sidecar. Use when assessing OpenScientist, Kosmos, or another provider report for one hypothesis.
Skill for collecting recent clinical Practice Guideline citations from PubMed for dismech disorder entries. Use this skill when building or refreshing a care-guideline citation set — searching PubMed by disorder for Publication Type "Practice Guideline"…
Mine Disease Trajectories (DT/DisTraj) outputs for comorbidity/trajectory candidates, including parsing DT JSON/TSV, extracting directed pairs, filtering by sex or significance, and mapping signals into dismech comorbidity YAML.
Project management skill for markdown-based projects with GitHub Project sync. Use when: (1) viewing/managing projects in projects/ folder, (2) syncing project checkboxes to GitHub Projects, (3) picking up next work item from a project, (4) updating project…