liftover-api

Welcome to the liftover API from EGA. This software is relying on score files for the liftover plugin for BCFTools developed here.

Wrapped in a Dockerized container, the software runs through an API request.

How to deploy

You will need to download the following files inside data folder:

• hg38ToHs1.over.chain.gz
• hg19ToHg38.over.chain.gz
• GRCh38_full_analysis_set_plus_decoy_hla.fa
• GRCh37-lite.fa

Once you have all the needed files, run the followimg command to deploy the liftover api:

docker compose up -d --build

How to use

Go to http://localhost:7000 and start making liftover queries:

http://localhost:7000/liftover?pos=19653341&refBases=AT&altBases=A&chr=21&finalAssembly=GRCh38