wtest: an integrated R package for genetic epistasis testing
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AbstractBackground:
With the increasing amount of high-throughput genomic sequencing data, there is a growing demand for a robust and flexible tool to perform interaction analysis. The identification of SNP-SNP, SNP-CpG, and higher order interactions helps explain the genetic etiology of human diseases, yet genome-wide analysis for interactions has been very challenging, due to the computational burden and a lack of statistical power in most datasets.
Results:
The wtest R package performs association testing for main effects, pairwise and high order interactions in genome-wide association study data, and cis-regulation of SNP and CpG sites in genome-wide and epigenome-wide data. The software includes a number of post-test diagnostic and analysis functions and offers an integrated toolset for genetic epistasis testing.
Conclusions:
The wtest is an efficient and powerful statistical tool for integrated genetic epistasis testing. The package is available in CRAN: https://CRAN.R-project.org/package=wtest.
All Author(s) ListSun R, Xia XX, Chong KC, Zee BCY, Wu WKK, Wang MHT
Journal nameBMC Medical Genomics
Detailed descriptionCorresponding author: Wang MHT
Year2019
Month12
Volume Number12
Issue NumberSuppl. 9
Article number180
Pages1 - 6
ISSN1755-8794
LanguagesEnglish-United Kingdom
KeywordsEpistasis testing, Association study, R package

Last updated on 2020-16-10 at 00:11