Rassoc swMATH ID: 25402 Software Authors: Yong Zang; Wing Fung; Gang Zheng Description: Simple Algorithms to Calculate Asymptotic Null Distributions of Robust Tests in Case-Control Genetic Association Studies in R. The case-control study is an important design for testing association between genetic markers and a disease. The Cochran-Armitage trend test (CATT) is one of the most commonly used statistics for the analysis of case-control genetic association studies. The asymptotically optimal CATT can be used when the underlying genetic model (mode of inheritance) is known. However, for most complex diseases, the underlying genetic models are unknown. Thus, tests robust to genetic model misspecification are preferable to the model-dependant CATT. Two robust tests, MAX3 and the genetic model selection (GMS), were recently proposed. Their asymptotic null distributions are often obtained by Monte-Carlo simulations, because they either have not been fully studied or involve multiple integrations. In this article, we study how components of each robust statistic are correlated, and find a linear dependence among the components. Using this new finding, we propose simple algorithms to calculate asymptotic null distributions for MAX3 and GMS, which greatly reduce the computing intensity. Furthermore, we have developed the R package Rassoc implementing the proposed algorithms to calculate the empirical and asymptotic p values for MAX3 and GMS as well as other commonly used tests in case-control association studies. For illustration, Rassoc is applied to the analysis of case-control data of 17 most significant SNPs reported in four genome-wide association studies. Homepage: https://www.jstatsoft.org/article/view/v033i08 Source Code: https://github.com/cran/Rassoc Dependencies: R Keywords: algorithm; asymptotic distributions; dependence of trend tests; genetic model selection; MAX3; robust tests; R; R package; Journal of Statistical Software Related Software: Eigenstrat; JMP; R; snpMatrix; devtools; tdthap; gap; pbatR; GenABEL; AssocTests; QUADPACK; mvtnorm; lawstat; PLINK; MaXact; QSIMVN; pchip Cited in: 11 Publications Standard Articles 1 Publication describing the Software Year all top 5 Cited by 28 Authors 3 Zheng, Gang 2 Geller, Nancy L. 2 Li, Qizhai 2 Wu, Colin O. 1 Bakke, Øyvind 1 Cao, Sha 1 Carmen Pardo, M. 1 Chen, Zhongxue 1 Ding, Juan 1 Franco-Pereira, Alba M. 1 Gastwirth, Joseph Lewis 1 Joo, Jungnam 1 Kozlitina, Julia 1 Langaas, Mette 1 Li, Zhaohai 1 Lu, Ying 1 Ng, Hon Keung Tony 1 Qu, Long 1 Schucany, William R. 1 Su, You 1 Wang, Linglu 1 Xiong, Wenjun 1 Xu, Jinfeng 1 Yuan, Ao 1 Zang, Yong 1 Zaykin, Dmitri 1 Zhang, Chi 1 Zhang, Wei all top 5 Cited in 7 Serials 3 Statistical Applications in Genetics and Molecular Biology 2 Journal of Applied Statistics 2 Journal of Agricultural, Biological, and Environmental Statistics 1 Statistics & Probability Letters 1 Statistical Science 1 Computational Statistics and Data Analysis 1 Statistics and Its Interface Cited in 4 Fields 10 Statistics (62-XX) 5 Biology and other natural sciences (92-XX) 1 History and biography (01-XX) 1 Numerical analysis (65-XX) Citations by Year