AACR Project GENIE ETL
Project description
AACR Project GENIE
Introduction
This repository documents code used to gather, QC, standardize, and analyze data uploaded by institutes participating in AACR's Project GENIE (Genomics, Evidence, Neoplasia, Information, Exchange).
Dependencies
These are tools or packages you will need, to be able to reproduce these results:
- Python 3.7 or higher
pip install -r requirements.txt
- bedtools
File Validator
pip install aacrgenie
genie -v
This will install all the necessary components for you to run the validator locally on all of your files, including the Synapse client. Please view the help to see how to run to validator.
genie validate -h
genie validate data_clinical_supp_SAGE.txt SAGE
Contributing
Please view contributing guide to learn how to contribute to the GENIE package.
Project details
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