omicwas: Cell-Type-Specific Association Testing in Bulk Omics Experiments

In bulk epigenome/transcriptome experiments, molecular expression is measured in a tissue, which is a mixture of multiple types of cells. This package tests association of a disease/phenotype with a molecular marker for each cell type. The proportion of cell types in each sample needs to be given as input. The package is applicable to epigenome-wide association study (EWAS) of microarray experiments. Takeuchi and Kato (submitted) "omicwas: cell-type-specific epigenome-wide and transcriptome association study".

Version: 0.3.1
Depends: R (≥ 3.6.0)
Imports: broom, data.table, dplyr, ff, glmnet, magrittr, MASS, matrixStats, parallel, PCDimension, ridge, rlang, R.utils, sva, tidyr
Suggests: testthat
Published: 2020-02-19
Author: Fumihiko Takeuchi ORCID iD [aut, cre]
Maintainer: Fumihiko Takeuchi <fumihiko at>
License: GPL-3
NeedsCompilation: no
Materials: README
CRAN checks: omicwas results


Reference manual: omicwas.pdf
Package source: omicwas_0.3.1.tar.gz
Windows binaries: r-prerelease:, r-release:, r-oldrel: not available
macOS binaries: r-prerelease: not available, r-release: omicwas_0.3.1.tgz, r-oldrel: not available


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