npg_ranger project
Introduction
This project is a contribution towards development of the streaming API under the GA4GH initiative (GA4GH Directory API and Streaming). The project has a server and a compatible command-line http client; both conform to GA4GH API
Package structure
bin - node.js scripts, server and client
lib - application libraries
test - tests
docker - scripts for deploying a server in docker containers in a cloud
docs - technical manuals
docs/api - generated API (run "grunt doc" to generate)
package.json - npm package definition
Gruntfile.js - grunt runner specification
File merging pipeline
We are using a light version of our samtools pipeline for merging by default, but the heavy version is available in the code, located inside lib/server/model.js.
This is because most of our data can work with the light pipeline, and the heavy version may be considerably more computationally taxing due to collating, fixmate, and sorting.
Related projects
- OAuth2 authorization server https://github.com/wtsi-npg/npg_sentry
- GA4GH-compatible genome browser (biodalliance) extension https://github.com/wtsi-npg/dalliance