kids-first Goto Github PK

arranger

🚧 Data Portal Generation

aws-glue-data-catalog-client-for-apache-hive-metastore

The AWS Glue Data Catalog is a fully managed, Apache Hive Metastore compatible, metadata repository. Customers can use the Data Catalog as a central repository to store structural and operational metadata for their data. AWS Glue provides out-of-box integration with Amazon EMR that enables customers to use the AWS Glue Data Catalog as an external Hive Metastore. This is an open-source implementation of the Apache Hive Metastore client on Amazon EMR clusters that uses the AWS Glue Data Catalog as an external Hive Metastore. It serves as a reference implementation for building a Hive Metastore-compatible client that connects to the AWS Glue Data Catalog. It may be ported to other Hive Metastore-compatible platforms such as other Hadoop and Apache Spark distributions

c2m2-submission-process

cloud-workspace-partnership-pilot

CFDE Cloud Workspace Partnership Pilot

clovoc-app-fhir-ingest

clovoc-app-fhir-tabulator

clovoc-ui-data-dashboard

commondatamodel

Definition and DDLs for the OMOP Common Data Model (CDM)

datahub

Forked from MSKCC, this is used to push KF published studies to MSKCC's cBioPortal to increase visibility and collaboration in pediatric reserarch

devops-requests

General DevOps Requests for KidsFirst DevOps team

ego

:white_check_mark: An OAuth 2.0 Authorization service that supports multiple OpenID Connect Identity Providers

ego-token-middleware

🚧 express middleware for validating the ego jwt

ego-ui

🚧 User Interface for Ego Authorization Service

kf-alignment-workflow

:microscope: Alignment workflow for Kids-First DRC

kf-annotation

Variant caller annotation repository. Outputs from variant germline and somatic callers need annotation to add context to calls. ARCHIVED 11 January 2024 as work derived from these efforts and in production will by in another repo

kf-annotation-tools

This repo contains commonly share annotation tools. Meant to be generally used as a git submodule for other variant calling workflows to centralize and simplify code development and maintainance.

kf-api-arranger

:factory: a data-model aware GraphQL API that sits above an Elasticsearch cluster

kf-api-bucketservice

🗑 Nano service for creating study buckets in S3

kf-api-dataservice

:file_cabinet: Primary API for interacting with the Kids First data

kf-api-fhir-service

🔥 FHIR Data Service for Kids First

kf-api-portal-reports

📝 Generate reports based on queries built using the Kids First Portal

kf-api-release-coordinator

🤹‍♀️ Coordinate multiple services to synchronize data releases

kf-api-search-members

This service provides an endpoint to query the member elasticsearch database. Results are returned based on a provided query string and some low / high limit for the number of results desired.

kf-api-study-creator

📂 Powers investigator-driven data staging. Backend for Data Tracker app

kf-arranger

🔎 Elasticsearch API Server for Kids First Portal

kf-arranger-admin

arranger admin api for the Kids First project

kf-bixu-template

This is a repo template that closely adheres to the general organizational template with a few modifications to for the BIXU team

kf-cavatica-public-app-publisher

This repo houses scripts and guidelines on publishing a CWL app as a public app on Cavtica

kf-cavatica-python-tools

Kids First Tools built on top of Sevenbridges Python API

kf-cbioportal-etl

Repository of scripts used to convert dataservice metadata and DRC processed data into cbio portal loading format.