Package: ReAD 1.0.1

Yan Li

ReAD: Powerful Replicability Analysis of Genome-Wide Association Studies

A robust and powerful approach is developed for replicability analysis of two Genome-wide association studies (GWASs) accounting for the linkage disequilibrium (LD) among genetic variants. The LD structure in two GWASs is captured by a four-state hidden Markov model (HMM). The unknowns involved in the HMM are estimated by an efficient expectation-maximization (EM) algorithm in combination with a non-parametric estimation of functions. By incorporating information from adjacent locations via the HMM, this approach identifies the entire clusters of genotype-phenotype associated signals, improving the power of replicability analysis while effectively controlling the false discovery rate.

Authors:Yan Li [aut, cre, cph], Haochen lei [aut], Xiaoquan Wen [aut], Hongyuan Cao [aut]

ReAD_1.0.1.tar.gz
ReAD_1.0.1.tar.gz(r-4.5-noble)ReAD_1.0.1.tar.gz(r-4.4-noble)
ReAD_1.0.1.tgz(r-4.4-emscripten)ReAD_1.0.1.tgz(r-4.3-emscripten)
ReAD.pdf |ReAD.html✨
ReAD/json (API)

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3 exports 0.00 score 35 dependencies 370 scripts 308 downloads

Last updated 1 years agofrom:ded0a60a71. Checks:OK: 1 NOTE: 1. Indexed: yes.

Exports:em_hmmReADSimuData

Dependencies:clicolorspacefansifarverggplot2gluegtableisobandlabelinglatticelifecyclemagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigplyrqvalueR6RColorBrewerRcppRcppArmadilloreshape2rlangscalesstringistringrtibbleutf8vctrsviridisLitewithr