clinical-genomics Goto Github PK

.github

Default community health files

access

This packet should be installed on servers to simplify access to lims and database

acme-tiny

A tiny script to issue and renew TLS certs from Let's Encrypt

apps

links to apps

arnold

backup

balsamic

Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer

balsamic_validate

BALSAMIC variant calling workflow validation with Illumina's Platinum Genome

binaries

build-podman

Build Podman with Github actions

bump2version-ci

Repository to host automated bump2version CI to run on python repositories

cadd-scripts

CADD scripts release for offline scoring. For more information about CADD, please visit our website

cancerpipeline

Scripts handling our canceer pipeline

cg

Glue between Clinical Genomics apps

cg-deployment

Clinical Genomics software deployment API

cg_lims

cgadmin

Admin interface and order portal

cgbeacon

Instructions and files to set up an Elixir-based beacon connected to a MySQL database.

cgbeacon2

An updated beacon supporting GA4GH API 1.0

cgface

Python package to connect to the cg REST API

cglims

LIMS interface for the specific usage at Clinical Genomics

cgmatch

Add patient data to a matchmaker exchange node and shows patient matching with test queries

cgmodels

Models and contracts used at clinical genomics

cgp-preparation-for-swedac-audit-2020

Preparation for Swedac audit 2020-06-10

cgstats

Models and connecting to clinstatsdb

chanjo

Chanjo provides a better way to analyze coverage data in clinical sequencing.

chanjo-report

Report generator for Chanjo output

chanjo2

Persistent coverage analysis tool using the d4 format

chromograph

Genetics graphing tool

clinical

General python modules for e.g. database access