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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) 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 <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 |
| In views: |
Omics |
| CRAN checks: |
omicwas results |
Documentation:
Downloads:
Linking:
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https://CRAN.R-project.org/package=omicwas
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These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.