Tutorials¶
These tutorials are meant to be followed, not memorized. Pick the one that matches the files you have today.
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Raw GWAS to results
Start with whole-genome summary statistics and PLINK reference panels.
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Existing loci list
Start with prepared locus-level files and run the pipeline.
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Pre-generated LD
Use existing UKB or 1KG LD matrices with your locus-level summary stats.
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Single ancestry
Fine-map one population or one cohort.
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Multi ancestry
Compare meta-analysis choices and multi-input tools.
Recommended Order¶
If this is your first run:
- Read Core Concepts.
- Run Quickstart.
- Follow Raw GWAS to Results with your own files.
- Use the guide pages when you need to make a choice.
Tutorials use real command names
Every tutorial uses the same commands listed in the CLI reference. The tutorials explain why you run a step; the reference pages list every flag.