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) and differential gene expression analysis. Takeuchi and Kato (submitted) "omicwas: cell-type-specific epigenome-wide and transcriptome association study".


Reference manual

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0.7.0 by Fumihiko Takeuchi, 4 months ago


Report a bug at https://github.com/fumi-github/omicwas/issues

Browse source code at https://github.com/cran/omicwas

Authors: Fumihiko Takeuchi [aut, cre]

Documentation:   PDF Manual  

GPL-3 license

Imports broom, data.table, dplyr, ff, glmnet, magrittr, MASS, matrixStats, parallel, PCDimension, rlang, sva, tidyr

Suggests testthat, knitr, rmarkdown

See at CRAN