Individual skill
clinical-trial-ipd-sim
End-to-end R workflow to simulate individual patient data (IPD) for a registered clinical trial using a g-formula causal-DAG simulator. Given an NCT ID with posted results and a protocol PDF, derives CRFs, builds an evidence-based causal DAG, parameterizes structural equations from ClinicalTrials.gov / literature priors, runs an R6 forward simulator, and calibrates marginal statistics to the published results without breaking causal identifiability. Emits CSV CRFs, a validated CDISC ODM v2.0 export, and an interactive DAG page.
clinical-trial-ipd-sim/SKILL.md
Source commit e5db96d54ef5a79cbfd06e2339a3351e4583f8da
What was checked
- Matches the observed repository HEAD
- Yes
- Scanner rules are current
- Yes
- Repository scan complete
- No
- Skill scan complete
- No
- Observed behavior
- Network or broad shell
- Last checked
- Nov 4, 2026
These are observations at the recorded commit, not a guarantee of safety. Review the source before running it.
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Repository context
- Repository stars (not skill ratings)
- 139
- Repository last updated
- Oct 23, 2026
- License
- Not available
Observed agent integration: No specific integration evidence. Standard SKILL.md installation does not imply verified compatibility.
- data Derived category
- operations Derived category
- research Derived category
- testing Derived category
- testing-browser Derived category
Files and excerpt
File metadata and permitted, redacted excerpts come from the recorded scan. Source links are pinned to that commit.
Browse files
.gitignoreasset · 350 bytesLICENSEasset · 1,091 bytesR/calibrate.Rasset · 4,191 bytesR/gates.Rasset · 8,401 bytesR/odm.Rasset · 2,681 bytesR/render.Rasset · 1,218 bytesR/rng.Rasset · 3,612 bytesR/skill_root.Rasset · 3,254 bytesR/trial_sim.Rasset · 13,537 bytesR/validate.Rasset · 2,718 bytesREADME.mddoc · 4,797 bytesSKILL.mdcore · 16,553 bytesSKILL.mdcore · 16,553 bytesassets/todos.pngasset · 57,919 bytescalibration.mddoc · 6,639 bytesexamples/allergy/cath/DAG.mddoc · 38,065 bytesexamples/allergy/cath/cath.Rasset · 1,628 bytesexamples/allergy/cath/cath_baseline.Rasset · 7,477 bytesexamples/allergy/cath/cath_dag_state.Rasset · 2,060 bytesexamples/allergy/cath/cath_emit.Rasset · 7,008 bytesexamples/allergy/cath/cath_gates.Rasset · 8,609 bytesexamples/allergy/cath/cath_graders.Rasset · 2,082 bytesexamples/allergy/cath/cath_longitudinal.Rasset · 13,725 bytesexamples/allergy/cath/cath_metrics.Rasset · 8,462 bytesexamples/allergy/cath/cath_outcomes.Rasset · 1,731 bytesexamples/allergy/cath/cath_params.Rasset · 5,964 bytesexamples/allergy/cath/intake/NCT00789880.jsonasset · 66,347 bytesexamples/allergy/cath/odm/crf_picks.jsonasset · 21,952 bytesexamples/allergy/cath/params/params_final.jsonasset · 43,414 bytesexamples/allergy/cath/run_cath.Rruns · 2,835 bytesexamples/autoimmune/rave/DAG.mddoc · 18,766 bytesexamples/autoimmune/rave/dag_state.Rasset · 2,369 bytesexamples/autoimmune/rave/odm/crf_picks.jsonasset · 18,338 bytesexamples/autoimmune/rave/rave.Rasset · 1,311 bytesexamples/autoimmune/rave/rave_baseline.Rasset · 4,582 bytesexamples/autoimmune/rave/rave_emit.Rasset · 6,043 bytesexamples/autoimmune/rave/rave_longitudinal.Rasset · 14,267 bytesexamples/autoimmune/rave/rave_metrics.Rasset · 5,942 bytesexamples/autoimmune/rave/rave_outcomes.Rasset · 2,226 bytesexamples/autoimmune/rave/rave_params.Rasset · 5,176 bytesexamples/autoimmune/rave/run_rave.Rruns · 3,084 bytesfind_protocol.mddoc · 2,517 bytespaperclip.mddoc · 3,052 bytesr_implementation.mddoc · 10,967 bytesscripts/setup_paperclip.shruns · 323 bytestemplates/crf_schema_template.mddoc · 12,028 bytestemplates/scm_spec_template.mddoc · 27,766 bytesvendor/python/find_protocol/find_protocol.pyruns · 7,518 bytesvendor/python/odm/build_spec.pyruns · 4,919 bytesvendor/python/odm/check_columns.pyruns · 2,582 bytesvendor/python/odm/check_odm.pyruns · 1,915 bytesvendor/python/odm/emit_clinicaldata.pyruns · 5,672 bytesvendor/python/odm/emit_odm.pyruns · 5,696 bytesvendor/python/odm/search_nci.pyruns · 1,835 bytesvendor/python/odm/xsd_v2/ODM-admindata.xsdasset · 15,712 bytesvendor/python/odm/xsd_v2/ODM-clinicaldata.xsdasset · 12,632 bytesvendor/python/odm/xsd_v2/ODM-enumerations.xsdasset · 40,469 bytesvendor/python/odm/xsd_v2/ODM-foundation.xsdasset · 27,869 bytesvendor/python/odm/xsd_v2/ODM-protocol.xsdasset · 33,991 bytesvendor/python/odm/xsd_v2/ODM-referencedata.xsdasset · 2,129 bytesvendor/python/odm/xsd_v2/ODM-study.xsdasset · 61,216 bytesvendor/python/odm/xsd_v2/ODM-types.xsdasset · 12,886 bytesvendor/python/odm/xsd_v2/ODM-xhtml.xsdasset · 67,165 bytesvendor/python/odm/xsd_v2/ODM.xsdasset · 479 bytesvendor/python/odm/xsd_v2/example_official_v2.xmlasset · 16,888 bytesvendor/python/odm/xsd_v2/xlink.xsdasset · 1,642 bytesvendor/python/odm/xsd_v2/xml.xsdasset · 4,686 bytesvendor/python/parsed_forms/README.mddoc · 1,670 bytesvendor/python/parsed_forms/nci.duckdbasset · 67,383,296 bytesvendor/python/parsed_forms/nci.duckdb.sha256asset · 65 bytesvendor/python/render/render_trial_docs.pyruns · 30,615 bytesvendor/python/requirements.txtdoc · 463 bytes
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