We developed the Integrated and Robust Deconvolution algorithm to infer cell-type proportions from target bulk RNA-seq data. This package is able to effectively integrate deconvolution results from multiple scRNA-seq datasets and calibrates estimates from reference-based deconvolution by taking into account extra biological information as priors. Moreover, the proposed algorithm is robust to inaccurate external information imposed in the deconvolution system.
Version: | 0.1.1 |
Depends: | R (≥ 3.5.0), Biobase |
Imports: | Rcpp (≥ 0.11.0), limSolve, cowplot, ggplot2, pheatmap, stats, DescTools, mgcv, reshape2 |
Suggests: | knitr, rmarkdown, testthat (≥ 3.0.0) |
Published: | 2022-08-12 |
DOI: | 10.32614/CRAN.package.InteRD |
Author: | Chixiang Chen [cre, aut], Yuk Yee Leung [aut], Matei Lonita [aut], Li-San Wang [aut], Mingyao Li [aut] |
Maintainer: | Chixiang Chen <chencxxy at hotmail.com> |
BugReports: | https://github.com/chencxxy28/InteRD/issues |
License: | Artistic-2.0 |
URL: | https://github.com/chencxxy28/InteRD |
NeedsCompilation: | no |
Materials: | README NEWS |
In views: | Omics |
CRAN checks: | InteRD results |
Reference manual: | InteRD.pdf |
Vignettes: |
InteRD (source, R code) |
Package source: | InteRD_0.1.1.tar.gz |
Windows binaries: | r-devel: InteRD_0.1.1.zip, r-release: InteRD_0.1.1.zip, r-oldrel: InteRD_0.1.1.zip |
macOS binaries: | r-devel (arm64): InteRD_0.1.1.tgz, r-release (arm64): InteRD_0.1.1.tgz, r-oldrel (arm64): InteRD_0.1.1.tgz, r-devel (x86_64): InteRD_0.1.1.tgz, r-release (x86_64): InteRD_0.1.1.tgz, r-oldrel (x86_64): InteRD_0.1.1.tgz |
Old sources: | InteRD archive |
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