opentargets/genetics-v2d-data opentargets/genetics-v2d-data

  • Stars
    star
    10
  • Rank 1,807,489 (Top 36 %)
  • Language
    Python
  • License
    Apache License 2.0
  • Created over 6 years ago
  • Updated about 2 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
opentargets/genetics-v2d-data
github

opentargets

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Variant to disease dataset workflows for Open Targets Genetics

More Repositories

1

genetics-sumstat-harmoniser

Harmonise GWAS summary statistics against a reference VCF
Python
38
star
2

gentropy

Open Targets python framework for post-GWAS analysis
Jupyter Notebook
33
star
3

genetics-gold-standards

GWAS gold standards repository
Python
29
star
4

genetics-finemapping

Fine-mapping pipeline for Open Targets Genetics
Python
25
star
5

OnToma

Map your disease and phenotype terms to the Open Targets platform ontology
Python
19
star
6

genetics-colocalisation

Colocalisation pipeline for Open Targets Genetics
Python
16
star
7

issues

Issue tracker for Open Targets Platform and Open Targets Genetics Portal
12
star
8

genetics-docs

11
star
9

genetics-api

Open Targets Genetics GraphQL API
Scala
11
star
10

genetics-l2g-scoring

Locus-to-gene scoring pipeline
Python
10
star
11

platform-api

GraphQL and Rest API rewrite of the current Open Targets platform API
Scala
9
star
12

json_schema

Open Targets target-disease association schema
Python
9
star
13

genetics-v2g-data

Workflows to generate cis-regulatory datasets used for variant-to-gene (V2G) assignment in Open Targets Genetics
Jupyter Notebook
9
star
14

opentargets.github.io

Open Targets corporate website code using Jekyll
HTML
8
star
15

platform-etl-backend

Scala
8
star
16

stopReasons

Analysis on stop reasons
Python
8
star
17

platform-etl-openfda-faers

Open Targets ETL to process OpenFDA FAERS DB
Scala
8
star
18

genetics-sumstat-data

Workflows for processing summary statistics files for Open Targets Genetics
HTML
8
star
19

mendelian-randomisation

R
7
star
20

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
Python
6
star
21

evidence_datasource_parsers

script to convert phewascatalog database to JSONs, with ENSGIDs and EFO ids.
Python
6
star
22

genetics-pipe

Scala
6
star
23

platform-input-support

Open Targets Platform input support project.
Python
5
star
24

platform-etl-literature

LIterature coNcept Knowledgebase for OpenTarget
Scala
5
star
25

curation

mappings used by the open targets platform to integrate data sources
Python
4
star
26

standalone-deployment-platform

Standalone local deployment for Open Targets Platform
Shell
4
star
27

ot-ui-apps

Open Targets Platform web applications
JavaScript
4
star
28

genetics-variant-annotation

Workflow to produce variant index annotation for Open Targets Genetics
Python
3
star
29

validator

Python
2
star
30

platform-checks

1
star
31

ot-release-metrics

Collection and visualisation of Open Targets Platform release metrics.
Python
1
star
32

finngen2efo

R
1
star
33

terraform-google-opentargets-platform

Terraform module for Open Targets Platform infrastructure definition
HCL
1
star
34

target_safety_data_pipeline

Python
1
star
35

expression_hierarchy

Utility to convert gxa hierarchy files to JSON
Python
1
star
36

orchestration

Open Targets pipeline orchestration layer
Python
1
star
37

baseline-expression

Code and documentation for baseline expression and specificity data.
Jupyter Notebook
1
star