bdi-kit 0.1.0

bdi-kit library

bdi-kit

This project aims to assist users in performing data integration on biomedical data. It provides tools to streamline the process of integrating disparate biomedical datasets.

Installation

You can install the latest stable version of this library from PyPI:

pip install bdi-kit

To install the latest development version:

pip install git+https://github.com/VIDA-NYU/bdi-kit@devel

Download the pre-trained model for mapping recommendations from here (we show how to use it in our examples).

Documentation

See our examples here.

Folder Structure

• /data_ingestion:

  • Contains scripts and tools for ingesting data into the system.

• /mapping_algorithms:

  • Algorithms and utilities for schema and value mapping.

• /mapping_recommendation:

  • Interacts with mapping_algorithms and users to suggest mappings for data integration. The output is a mapping plan.

• /transformation:

  • Transforms the data given a mapping plan.

• /visualization:

  • Visualizations to aid in the mapping recommendation process.