Software and Programs for Statistical Analysis

1. The SAS simulation program CZGL.sas for the paper "Linkage Disequilibrium Mapping of Quantitative Trait Loci by Selective Genotyping" by Z. Chen, G. Zheng, K. Ghosh and Z. Li (2005, Am J Hum Genet 77:661-669).

2. The R codes CR.txt for cryptic relatedness simulation and PS.txt for population stratification simulation used in the paper "Robust genomic control and robust delta centralization for case-control association studies" by Y. Zang, H. Zhang, Y. Yang and G. Zheng (2007, Hum Hered, 63:187-195).

3. The R code MAX-rank.R for "MAX-rank: a simple and robust genome-wide scan for case-control association studies" by Q. Li, K. Yu, Z. Li and G. Zheng (2008, Hum Genet 123:617-623).

4. The R code TSC.txt for "Tail strength to combine two p-values: their correlation cannot be ignored" by Y. Zang, W.K. Fung and G. Zheng (2009, Am J Hum Genet, in press).

5. The R codes MAX_T.txt (theoretical) and MAX_E.txt (empirical) for "Asymptotic powers for matched trend tests and robust matched trend tests in case-control genetic association studies" by Y. Zang, W.K. Fung and G. Zheng.

6. The R codes readmen, basic functions, permutation, threshold-power-score matrix, and threshold-power-score vector for "A robust test for multiply ordered 2xJ contingency table" by M. Yuan, J. Xu, Y. Yang and G. Zheng.

7. The R codes for the Tutorial in Biostatistics "Efficiency robust statistics for genetic linkage and association studies under genetic model uncertainty" by Joo, J., Kwak, M., Chen, Z., and Zheng, G. (Statistics in Medicine). The R code for the sib-pair analysis is sibpair.R. The R codes for case-control studies contain the main function: casecontrol.R, and functions called by the main function casecontrol_ftns.R. The R codes for the trio analysis contains two files as case-control studies: the main function trio.R and the functions trio_ftns.R.