SCdeconR: Deconvolution of Bulk RNA-Seq Data using Single-Cell RNA-Seq Data as Reference (original) (raw)
Streamlined workflow from deconvolution of bulk RNA-seq data to downstream differential expression and gene-set enrichment analysis. Provide various visualization functions.
| Version: | 1.0.0 |
|---|---|
| Depends: | dplyr, edgeR, foreach, ggplot2, R (≥ 2.10), Seurat |
| Imports: | data.table, gtools, harmony, MASS, Matrix, NMF, reshape2, Biobase, mgcv, grDevices, glmGamPoi |
| Suggests: | FARDEEP, reticulate, plotly, DESeq2, knitr, limma, nnls, preprocessCore, rmarkdown, scater, scran, SingleCellExperiment, doFuture, future, sctransform, Linnorm |
| Published: | 2024-03-22 |
| DOI: | 10.32614/CRAN.package.SCdeconR |
| Author: | Yuanhang Liu [aut, cre] |
| Maintainer: | Yuanhang Liu <liu.yuanhang at mayo.edu> |
| License: | GPL (≥ 3) |
| URL: | https://github.com/Liuy12/SCdeconR/,https://liuy12.github.io/SCdeconR/ |
| NeedsCompilation: | no |
| Materials: | README NEWS |
| CRAN checks: | SCdeconR results |
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