• GEVALT - GEVALT (GEnotype Visualization and ALgorithmic Tool) is designed to simplify and expedite the process of genotype analysis and disease association tests by providing a common interface to several common tasks relating to such analyses. It is aimed for analysis of unrelated individuals as well as two-generation families.
  
  
• RAT - RAT (Rapid Association Test) is a software for testing association between single nucleotide polymorphisms (SNPs) and a disease. The main advantage of RAT is its ability to calculate accurately and quickly high significance disease association. For large data set and low p-values, RAT is 2-4 orders of magnitude faster than the standard permutation test. The software is written in C++, and can be used under both Linux and Windows platforms.
  
  
• PSAT - PSAT (Population Stratification Association Test) is a software for testing association between single nucleotide polymorphisms (SNPs) and a disease with stratification. The approach is a randomization test akin to a standard permutation test.  It conditions on the genotype matrix and thus takes account not only of the population structure but also of the complex linkage disequilibrium structure of the genome. The main advantage of PSAT is its ability to calculate accurately and quickly high significance disease association. The software is written in C++. Binary versions of PSAT are ready for Linux and Windows platforms.
  
  The software is based on an algorithm described in the following paper:
  Gad Kimmel, Michael I. Jordan, Eran Halperin, Ron Shamir and Richard M. Karp. A randomization test for controlling population stratification in whole-genome association studies. To appear in American Journal of Human Genetics, 2007.