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Latest PLINK release is v1.00 (5-Dec-2007)

Whole genome association analysis toolset

Introduction | Basics | Download | Reference | Formats | Data management | Summary stats | Filters | Stratification | IBS/IBD | Association | Family-based | Permutation | Haplotypes | Conditional tests | Proxy association | Imputation | Clumping | Epistasis | R-plugins | SNP annotation | Simulation | Profiles | Resources | Misc. | FAQ | gPLINK

1. Introduction

2. Basic information

3. Download and general notes

4. Command reference table

5. Basic usage/data formats 6. Data management

7. Summary stats 8. Inclusion thresholds 9. Population stratification 10. IBS/IBD estimation 11. Association 12. Family-based association 13. Permutation procedures 14. Multimarker tests 15. Conditional haplotype tests 16. Proxy association 17. Full imputation (beta) 18. LD-based results clumping 19. Epistasis 20. R-plugins 21. SNP annotation lookup 22. Simulation tools 23. Profile scoring 24. Resources 25. Miscellaneous 26. FAQ & Hints

27. gPLINK