API ⚙️

A full listing of all API endpoints can be found here:

https://www.genomenexus.org/swagger-ui.html.

API Clients

For access through Python/R see the notebooks here:

https://github.com/genome-nexus/genome-nexus/tree/master/notebooks

Command Line Clients

There are two Command Line Clients available. One written in NodeJS which provides a simple user-friendly interface:

https://github.com/genome-nexus/genome-nexus-cli

There is also a Java Command Line Client which has been developed with a focus on internal processes at Memorial Sloan Kettering Cancer Center but might work for your use case as well:

https://github.com/genome-nexus/genome-nexus-annotation-pipeline

They are similar in terms of feature completeness

Other Languages

The API follows the Swagger/Open API specification, so clients can be generated in most languages: https://openapi-generator.tech/docs/generators

Applications build on top of the API

See the tools section