opentargets Goto Github PK

approvalssupport

Retrospective of drug approvals support

baseline-expression

Code and documentation for baseline expression and specificity data.

chembl-es-mappings

Helper scripts to ensure that indexes queried by PIS have not changed.

curation

mappings used by the open targets platform to integrate data sources

drugdataenrichment

The OpenTargets drug datasets enriched with genetics data using structural information.

ebi-helper-ftp-sync

Docker container definition for helping on data synchronization tasks into the EBI FTP Service

ebi-to-gcp

Synchronise EBI LSF locations to Google Cloud Platform

evidence_datasource_parsers

script to convert phewascatalog database to JSONs, with ENSGIDs and EFO ids.

experimental_programme

expression_hierarchy

Utility to convert gxa hierarchy files to JSON

finngen2efo

genetics-api

Open Targets Genetics GraphQL API

genetics-backend

QC, spin VMs, load data into DBs, create LUTs and other fun backend stuff we need to do to spin https://genetics.opentargets.org

genetics-colocalisation

Colocalisation pipeline for Open Targets Genetics

genetics-docs

genetics-finemapping

Fine-mapping pipeline for Open Targets Genetics

genetics-gold-standards

GWAS gold standards repository

genetics-input-support

Open Targets Genetics input support project.

genetics-l2g-scoring

Locus-to-gene scoring pipeline

genetics-loadtests

genetics-output-support

GOS is an automatic and unified place to perform a release of OT Genetics to the public

genetics-pipe

genetics-pubs

Analysis code for Open Targets Genetics publications

genetics-sumstat-data

Workflows for processing summary statistics files for Open Targets Genetics

genetics-sumstat-harmoniser

Harmonise GWAS summary statistics against a reference VCF

genetics-v2d-data

Variant to disease dataset workflows for Open Targets Genetics

genetics-v2g-data

Workflows to generate cis-regulatory datasets used for variant-to-gene (V2G) assignment in Open Targets Genetics

genetics-variant-annotation

Workflow to produce variant index annotation for Open Targets Genetics

genetics_data_revision

This repository hosts the code to adapt the genetics output data to their data and schema iterations

gentropy

Open Targets python framework for post-GWAS analysis