omicwas: Cell-Type-Specific Association Testing in Bulk Omics Experiments (original) (raw)
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".
| Version: | 0.8.0 |
|---|---|
| Depends: | R (≥ 3.6.0) |
| Imports: | broom, data.table, dplyr, ff, glmnet, magrittr, MASS, matrixStats, parallel, purrr, rlang, tidyr |
| Suggests: | testthat, knitr, rmarkdown |
| Published: | 2020-10-08 |
| DOI: | 10.32614/CRAN.package.omicwas |
| Author: | Fumihiko Takeuchi  [aut, cre] |
| Maintainer: | Fumihiko Takeuchi |
| BugReports: | https://github.com/fumi-github/omicwas/issues |
| License: | GPL-3 |
| URL: | https://github.com/fumi-github/omicwas |
| NeedsCompilation: | no |
| Materials: | README |
| In views: | Omics |
| CRAN checks: | omicwas results |
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