FinnGen tool catalog
| Tool | Access type | Brief summary |
|---|---|---|
Web, needs FinnGen green account | Browse core GWAS results, conditional analysis, finemapping, colocs | |
Web, needs FinnGen green account | Browse GWAS results for FG/UKBB and FG/UKBB/EST | |
Web, needs FinnGen green account | Browse GWAS results for user-defined phenotypes | |
Web, needs FinnGen green account | Addititive and recessive phenotype associations for rare and common coding variants | |
Web, needs FinnGen green account | Tool to annotate lead variants with phenotype associations, eQTLs, pQTLs and splice QTLs | |
Web, no account required | Core endpoint definitions and relationships between endpoints | |
Endpoint Browser (Beta) | Web, no account required | Tool to understand the relationships between FinnGen core endpoints |
Web, no account required | Align and browse 2–20 GWAS scans | |
Web, no account required | Display PheWAS for a variant as lava plot | |
Atlas | Sandbox/TRE (red access) | OHDSI/OMOP tool to define cohorts and concept sets |
Cohort Operations | Sandbox/TRE (red access) | Tools to work with lists of cohorts as FinnGen IDs |
LifeTrack | Sandbox/TRE (red access) | View the health history of an invidual |
TVT (Patient Trajectories) | Sandbox/TRE (red access) | View a cohort of individuals health trajectories |
Genotype Browser | Sandbox/TRE (red access) | View, edit and export genotype data |
CustomGWAS | Sandbox/TRE (red access) | GUI to assist users running custom GWAS |
Pipelines | Sandbox/TRE (red access) | GUI to help with running Regenie, Finemapping, GATE, etc. |
PGS Browser | Sandbox/TRE (red access) | View polygenic scores for existing endpoints or a custom cohort |
GitHub approval | Repository of code for FinnGen analyses | |
OHDSI CDM Code | GitHub approval required? | Repository of code for OHDIS ETL and accessing FinnGen CDM |
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