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. The software is based on an algorithm described in [1]. In the current version, on Windows, the software must be run under Cygwin. Cygwin is a Linux-like environment for Windows, which can be downloaded freely.

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The People Behind RAT

RAT is developed in Prof. Ron Shamir's Computational Genomics Laboratory at the School of Computer Science, Tel Aviv University, Israel, as part of an ongoing effort to develop mathematical models and practical tools for analyzing genotype data. The developers are Gad Kimmel and Ron Shamir.


[1] A Fast Method for Computing High Significance Disease Association in Large Population-Based Studies. Gad Kimmel and Ron Shamir. Am. J. Hum. Genet. 2006. [PDF]