[aut, cre]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: | 0.7.0 |
| Depends: | R (≥ 3.6.0) |
| Imports: | broom, data.table, dplyr, ff, glmnet, magrittr, MASS, matrixStats, parallel, PCDimension, rlang, sva, tidyr |
| Suggests: | testthat, knitr, rmarkdown |
| Published: | 2020-06-02 |
| Author: | Fumihiko Takeuchi
[aut, cre] |
| Maintainer: | Fumihiko Takeuchi <fumihiko at takeuchi.name> |
| BugReports: | https://github.com/fumi-github/omicwas/issues |
| License: | GPL-3 |
| URL: | https://github.com/fumi-github/omicwas |
| NeedsCompilation: | no |
| Materials: | README |
| CRAN checks: | omicwas results |
| Reference manual: | omicwas.pdf |
| Vignettes: |
Introduction to omicwas |
| Package source: | omicwas_0.7.0.tar.gz |
| Windows binaries: | r-devel: omicwas_0.7.0.zip, r-release: omicwas_0.7.0.zip, r-oldrel: omicwas_0.7.0.zip |
| macOS binaries: | r-release: omicwas_0.7.0.tgz, r-oldrel: omicwas_0.7.0.tgz |
| Old sources: | omicwas archive |
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