Provides a function toolkit to facilitate reproducible RNA-Seq Differential Gene Expression (DGE) analysis (Law (2015) <doi:10.12688/f1000research.9005.3>). The tools include both analysis work-flow and utility functions: mapping/unit conversion, count normalization, accounting for unknown covariates, and more. This is a complement/cohort to the 'DGEobj' package that provides a flexible container to manage and annotate Differential Gene Expression analysis results.
| Version: | 1.0.6 |
| Depends: | R (≥ 3.5.0) |
| Imports: | assertthat, DGEobj (≥ 1.0.3), dplyr, methods, stats, stringr |
| Suggests: | biomaRt, canvasXpress, conflicted, edgeR, glue, ggplot2, IHW, limma, knitr, qvalue, RNASeqPower, rmarkdown, statmod, sva, testthat, zFPKM |
| Published: | 2022-05-19 |
| DOI: | 10.32614/CRAN.package.DGEobj.utils |
| Author: | John Thompson [aut], Connie Brett [aut, cre], Isaac Neuhaus [aut], Ryan Thompson [aut] |
| Maintainer: | Connie Brett <connie at aggregate-genius.com> |
| License: | GPL-3 |
| NeedsCompilation: | no |
| Language: | en-US |
| Materials: | README NEWS |
| In views: | Omics |
| CRAN checks: | DGEobj.utils results |
| Reference manual: | DGEobj.utils.pdf |
| Vignettes: |
DGEobj.utils: An Example Workflow (source) |
| Package source: | DGEobj.utils_1.0.6.tar.gz |
| Windows binaries: | r-devel: DGEobj.utils_1.0.6.zip, r-release: DGEobj.utils_1.0.6.zip, r-oldrel: DGEobj.utils_1.0.6.zip |
| macOS binaries: | r-devel (arm64): DGEobj.utils_1.0.6.tgz, r-release (arm64): DGEobj.utils_1.0.6.tgz, r-oldrel (arm64): DGEobj.utils_1.0.6.tgz, r-devel (x86_64): DGEobj.utils_1.0.6.tgz, r-release (x86_64): DGEobj.utils_1.0.6.tgz, r-oldrel (x86_64): DGEobj.utils_1.0.6.tgz |
| Old sources: | DGEobj.utils archive |
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