Merge pull request #12 from smart-on-fhir/readme-update-preprint

Readme updated with supplement for publication
smart-on-fhir · Nov 11, 2024 · 00a0beb · 00a0beb
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-# cumulus-library-suicidality-icd10
-Validation of ICD-10 code usage of Suicidality Cases Compared to Patient Chart Review
+# How reliable are ICD-10 diagnosis codes to identify cases of pediatric suicidality?
+
+This study repository includes:
+
+* **Suicidality ICD10 case definition** (SQL) 
+* **Supplement**   
+  1. Suicidality ICD10 Case Definition (XLS/TSV)
+  2. Propensity Score Matching (Word/PDF)
+  3. Suicidality Chart Review Guidelines (Word/PDF)
+  4. Additional Statistical Measures (Word/PDF)
+
+## Usage
+
+To install the module, run `pip install cumulus-library-suicidality-icd10`.
+
+This will add a `cumulus-library-suicidality-icd10` study target to `cumulus-library`.
+
+This study is built using SMART Cumulus:  
+* [Cumulus Library](https://docs.smarthealthit.org/cumulus/library) templates for "SQL on FHIR"
+* [Chart Review](https://docs.smarthealthit.org/cumulus/chart-review/) packages for subject matter experts to label "ground truth"
+* [Propensity Score Matching](https://docs.smarthealthit.org/cumulus/library/statistics/propensity-score-matching.html) (PSM) to select "case matched comparators"
+
+## Publication
+
+__Accuracy of ICD-10 codes for suicidal ideation and action in pediatric emergency department encounters__
+Rena Xu, Louisa Bode, Alon Geva, Kenneth D. Mandl, Andrew J. McMurry. Pediatrics. 2024. 
+https://doi.org/10.1101/2024.07.23.24310777
diff --git a/cumulus_library_suicidality_icd10/chartreview_case.sql b/cumulus_library_suicidality_icd10/chartreview_case.sql
diff --git a/cumulus_library_suicidality_icd10/chartreview_compare.sql b/cumulus_library_suicidality_icd10/chartreview_compare.sql
diff --git a/supplement/Supplement 1- Suicidality ICD-10 Case Definition.tsv b/supplement/Supplement 1- Suicidality ICD-10 Case Definition.tsv
diff --git a/supplement/Supplement 1- Suicidality ICD-10 Case Definition.xlsx b/supplement/Supplement 1- Suicidality ICD-10 Case Definition.xlsx
diff --git a/supplement/Supplement 2- Propensity Score Matching.docx b/supplement/Supplement 2- Propensity Score Matching.docx
diff --git a/supplement/Supplement 2- Propensity Score Matching.pdf b/supplement/Supplement 2- Propensity Score Matching.pdf
diff --git a/supplement/Supplement 3- Suicidality Chart Review Guidelines.docx b/supplement/Supplement 3- Suicidality Chart Review Guidelines.docx
diff --git a/supplement/Supplement 3- Suicidality Chart Review Guidelines.pdf b/supplement/Supplement 3- Suicidality Chart Review Guidelines.pdf
diff --git a/supplement/Supplement 4- Additional Statistical Measures.docx b/supplement/Supplement 4- Additional Statistical Measures.docx
diff --git a/supplement/Supplement 4- Additional Statistical Measures.pdf b/supplement/Supplement 4- Additional Statistical Measures.pdf