CASTom-iGEx workflow example

CASTom-iGEx example workflow
This example provides simulated genetic data, one reference PriLer model and a typical workflow bash script covering the following steps:
1. Imputation of gene expression from genotype data using a reference PriLer model
2. Calculation of T-scores and pathway scores based on GO and Reactome databases
3. Association testing between scores and a simulated diagnosis

The CASTom-iGEx toolkit can be downloaded from https://github.com/zillerlab/CASTom-iGEx. This example provides a model for Brain Cortex trained on GTEx data. The rest of the models for other tissues can be downloaded from https://figshare.com/articles/dataset/Trained_PriLer_models_on_European_ancestry_individuals/22347574/.

Before executing the example script castom_example.sh, open it and add path to the main CASTom-iGEx directory.