Explore @opentargets Open Source projects

Open Targets (@opentargets)

opentargets

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genetics-sumstat-harmoniser

Harmonise GWAS summary statistics against a reference VCF

gentropy

Open Targets python framework for post-GWAS analysis

Jupyter Notebook

genetics-gold-standards

GWAS gold standards repository

genetics-finemapping

Fine-mapping pipeline for Open Targets Genetics

OnToma

Map your disease and phenotype terms to the Open Targets platform ontology

genetics-colocalisation

Colocalisation pipeline for Open Targets Genetics

issues

Issue tracker for Open Targets Platform and Open Targets Genetics Portal

genetics-docs

genetics-api

Open Targets Genetics GraphQL API

genetics-v2d-data

Variant to disease dataset workflows for Open Targets Genetics

genetics-l2g-scoring

Locus-to-gene scoring pipeline

platform-api

GraphQL and Rest API rewrite of the current Open Targets platform API

json_schema

Open Targets target-disease association schema

genetics-v2g-data

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

Jupyter Notebook

opentargets.github.io

Open Targets corporate website code using Jekyll

platform-etl-backend

stopReasons

Analysis on stop reasons

platform-etl-openfda-faers

Open Targets ETL to process OpenFDA FAERS DB

genetics-sumstat-data

Workflows for processing summary statistics files for Open Targets Genetics

mendelian-randomisation

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

evidence_datasource_parsers

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

genetics-pipe

platform-input-support

Open Targets Platform input support project.

platform-etl-literature

LIterature coNcept Knowledgebase for OpenTarget

curation

mappings used by the open targets platform to integrate data sources

standalone-deployment-platform

Standalone local deployment for Open Targets Platform

ot-ui-apps

Open Targets Platform web applications

genetics-variant-annotation

Workflow to produce variant index annotation for Open Targets Genetics

validator

platform-checks

ot-release-metrics

Collection and visualisation of Open Targets Platform release metrics.

finngen2efo

terraform-google-opentargets-platform

Terraform module for Open Targets Platform infrastructure definition

target_safety_data_pipeline

expression_hierarchy

Utility to convert gxa hierarchy files to JSON

orchestration

Open Targets pipeline orchestration layer

baseline-expression

Code and documentation for baseline expression and specificity data.

Jupyter Notebook