# 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](/tools)

# 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](Tools.md)

Fix tools link in docs
Fix tools link in docs