GRIMM: Graph IMputation and Matching for HLA Genotypes
Graph-based imputation and matching
| Subdirectory | Description |
|---|---|
| graph_generator | Python code to generate (haplotype frequency) CSV files which can be imported into Neo4j |
| gl_impute | Python code for graph-based imputation. |
| multi_race_impute | Python code for graph-based imputation |
| validation | Code for validation of components of this repository |
Walkthrough
1. Generate Initial Graph
Follow Graph Generation to generate haplotype frequency CSV files and import to Neo4j.
2. Perform Imputation
Follow Imputation directions to produce imputation results from frequency files.
3. Perform Matching
Follow Match Validation to perform matching and compare against consensus results.