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  1. ACT, Analysis of Complex Traits
  2. ADEGENET
  3. ADMIXMAP, Admixture mapping
  4. AGEINF
  5. ALBERT, A Likelihood Based Estimation of Risk in Trios
  6. ALLASS
  7. ALLEGRO
  8. ALLELIX, Allelix - Paternity Linkage Analysis Online
  9. ALOHOMORA
  10. ALP, Automated Linkage Preprocessor
  11. Altrans
  12. ALTREE
  13. AMELIA, Allele Matching Empirical Locus-specific Integrated Association test
  14. ANALYZE
  15. ANCESTRY
  16. ANCESTRYMAP
  17. ANNOVAR, functional ANNOtation of genetic VARiants
  18. ANTMAP
  19. APE, Allelic Path Explorer
  20. APL-OSA, Association in the Presence of Linkage with Ordered Subset Analysis
  21. APM, Affected Pedigree-Member Method
  22. ARIEL, Accumulation of Rare variants Integrated and Extended Locus-specific test
  23. ARLEQUIN, * French translation of “Arlecchino”
  24. ARP.GEE
  25. ASP/ASPSHARE
  26. ASPEX, Affected Sib Pairs EXclusion map
  27. ASSOCIATIONVIEWER
  28. AUTOSCAN