Package: MetaSKAT 0.90

MetaSKAT: Meta Analysis for SNP-Set (Sequence) Kernel Association Test

Functions for Meta-analysis Burden Test, Sequence Kernel Association Test (SKAT) and Optimal SKAT (SKAT-O) by Lee et al. (2013) <doi:10.1016/j.ajhg.2013.05.010>. These methods use summary-level score statistics to carry out gene-based meta-analysis for rare variants.

Authors:Seunggeun Lee [aut, cre]

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manual.pdf |manual.html✨
card.svg |card.png
MetaSKAT/json (API)

# Install 'MetaSKAT' in R:
install.packages('MetaSKAT', repos = c('https://leeshawn.r-universe.dev', 'https://cloud.r-project.org'))
Uses libs:
  • c++– GNU Standard C++ Library v3
Datasets:

On CRAN:

Conda:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

cpp

2.38 score 1 stars 24 scripts 333 downloads 8 exports 7 dependencies

Last updated from:61cb579bbc. Checks:13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK128
linux-devel-x86_64OK125
source / vignettesOK174
linux-release-arm64OK118
linux-release-x86_64OK126
macos-release-arm64OK94
macos-release-x86_64OK438
macos-oldrel-arm64OK100
macos-oldrel-x86_64OK249
windows-develOK126
windows-releaseOK123
windows-oldrelOK102
wasm-releaseOK91

Exports:Generate_Meta_FilesGenerate_Meta_Files_FromDosageMeta_Null_ModelMeta_Null_Model_EmmaXMetaSKAT_MSSD_ALLMetaSKAT_MSSD_OneSetMetaSKAT_wZOpen_MSSD_File_2Read

Dependencies:latticeMatrixRcppRcppEigenRSpectraSKATSPAtest

SKAT

Rendered fromMetaSKAT.Rnwusingutils::Sweaveon May 10 2026.

Last update: 2020-11-14
Started: 2013-10-10

Readme and manuals

Help Manual

Help pageTopics
Example datasetExample
Generate summary statistics filesGenerate_Meta_Files Generate_Meta_Files_FromDosage
Get parameters and residuals from H0Meta_Null_Model Meta_Null_Model_EmmaX
Meta analysis SKAT with summary data from each study cohort.MetaSKAT_MSSD_ALL MetaSKAT_MSSD_OneSet
Meta analysis SKAT with individual level genotype dataMetaSKAT_wZ
Read Meta SSD and Info filesOpen_MSSD_File_2Read