Immune Exposure Validation

This repository contains scripts and data for validating immune exposure tables using VALVE.

Prerequisites

• Python 3
• valve.py
• xlsx2csv

Installation

1. Make sure Python 3 is installed.
2. Clone this repository.
3. In order to use VALVE, the validation engine, there must be datatype, field, and rule tables. These tables are included to get you started. Please modify these as needed. Refer to the VALVE documentation for more information. There is also a terminology table that includes ontology terms that were used in immune exposure model described here.

Validation and Extraction

1. If you have an immune exposure table or any related tables (such as terminology, datatype, etc.) in an Excel Workbook, please rename this file as immune_exposure.xlsx and run make extract to extract all sheets into tables directory. Note that if there is a sheet in the Excel file with the same name as the tables included in the tables directory, the Excel sheet will replace the contents of the provided table in the tables directory.
2. Run make validate to run validation.