AssocTests: An R Package for Genetic Association Studies
Wang, Lin1; Zhang, Wei2; Li, Qizhai2,3
AbstractThe R package AssocTests provides some procedures which are commonly used in genetic association studies. These procedures are population stratification correction through eigenvectors, principal coordinates of clusterings, Tracy-Widom test, distance regression, single-marker test, maximum test based on three Cochran-Armitage trend tests, non-parametric trend test, and non-parametric maximum test. The trait values for these methods should be discrete or continuous. The discrete traits can be coded by 1/0 for cases/controls. The genotype values can be 0, 1, or 2 indicating the number of risk alleles for a biallelic single-nucleotide polymorphism. This article introduces the methods and algorithms implemented in the package. Some examples are provided to illustrate the package's capability.
Keyworddistance regression genetic association studies population stratification Tracy-Widom test R
Indexed BySCI
Funding ProjectSpecial National Key Research and Development Plan[2016YFD0400206] ; Beijing Natural Science Foundation[Z180006] ; National Science Foundation of China[11722113] ; National Nature Science Foundation of China[11701391] ; Scientific Research Level Improvement Quota Project of Capital University of Economics and Business ; 100 Talents Program of The Chinese Academy of Sciences for Young Scholars ; National Institutes of Health[NO1-AR-2-2263] ; National Institutes of Health[RO1-AR-44422] ; National Arthritis Foundation
WOS Research AreaComputer Science ; Mathematics
WOS SubjectComputer Science, Interdisciplinary Applications ; Statistics & Probability
WOS IDWOS:000552355700001
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Document Type期刊论文
Corresponding AuthorLi, Qizhai
Affiliation1.Capital Univ Econ & Business, Sch Stat, 121 Zhangjialukou, Beijing 100070, Peoples R China
2.Chinese Acad Sci, Acad Math & Syst Sci, LSC, 55 Zhongguancun East Rd, Beijing 100190, Peoples R China
3.Univ Chinese Acad Sci, Sch Math Sci, Beijing 100049, Peoples R China
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Wang, Lin,Zhang, Wei,Li, Qizhai. AssocTests: An R Package for Genetic Association Studies[J]. JOURNAL OF STATISTICAL SOFTWARE,2020,94(5):1-26.
APA Wang, Lin,Zhang, Wei,&Li, Qizhai.(2020).AssocTests: An R Package for Genetic Association Studies.JOURNAL OF STATISTICAL SOFTWARE,94(5),1-26.
MLA Wang, Lin,et al."AssocTests: An R Package for Genetic Association Studies".JOURNAL OF STATISTICAL SOFTWARE 94.5(2020):1-26.
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