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Commit 0b243914 authored by mjbonifa's avatar mjbonifa
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docs: added directory docs and yaml config doc file. closes #9

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...@@ -41,7 +41,7 @@ The tool supports verification and mapping across diagnostic coding formats belo ...@@ -41,7 +41,7 @@ The tool supports verification and mapping across diagnostic coding formats belo
## Phenotype Definition ## Phenotype Definition
### **Phenotype directory structure ### **Phenotype directory structure**
``` ```
workspace/ # Default workspace directory workspace/ # Default workspace directory
...@@ -49,7 +49,7 @@ workspace/ # Default workspace directory ...@@ -49,7 +49,7 @@ workspace/ # Default workspace directory
│ ├── codes/ # Phenotype source concept code lists directory │ ├── codes/ # Phenotype source concept code lists directory
│ ├── concept-set/ # Processed phenotype concept sets in CSV format │ ├── concept-set/ # Processed phenotype concept sets in CSV format
│ ├── map/ # Process mapping from source to target code types │ ├── map/ # Process mapping from source to target code types
│ │ ├── errors/ # Errors recorded during mapping │ │ ├── errors/ # Errors recorded during mapping process
│ ├── omop/ # Processed phenotype concept sets in OMOP database CSV files │ ├── omop/ # Processed phenotype concept sets in OMOP database CSV files
│ ├── config.yaml # Phenotype configuration file │ ├── config.yaml # Phenotype configuration file
│ ├── vocab_versions.yaml # Versions file for vocabularies used to generate concept sets │ ├── vocab_versions.yaml # Versions file for vocabularies used to generate concept sets
......
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