StatescopeR
StatescopeR framework for discovery of cell states from cell type-specific gene expression profiles inferred from bulk mRNA profiles
Bioconductor version: 3.23 · Package version: 1.0.1
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
StatescopeR is an R wrapper around Statescope, a computational framework designed to discover cell states from cell type-specific gene expression profiles inferred from bulk RNA profiles.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("StatescopeR")Details
| Maintainer | Mischa Steketee <m.f.b.steketee@amsterdamumc.nl> |
| Author | Mischa Steketee [aut, cre] (ORCID: <https://orcid.org/0000-0001-7138-7554>), Bauke Ylstra [ths] (ORCID: <https://orcid.org/0000-0001-9479-3010>), Yongsoo Kim [ths] (ORCID: <https://orcid.org/0000-0002-2995-2131>), KWF Kankerbestrijding [fnd] |
| License | MIT + file LICENSE |
| URL | https://github.com/tgac-vumc/StatescopeR |
| Bug Reports | https://github.com/tgac-vumc/StatescopeR/issues |
| Source branch | RELEASE_3_23 |
| Build report | Bioconductor build system, r-universe |
| biocViews | Bayesian, GeneExpression, RNASeq, SingleCell, Software, Transcriptomics |
| Package Short Url | https://bioconductor.org/packages/StatescopeR/ |
Citation
From within R, enter citation("StatescopeR"):
Mischa Steketee. StatescopeR: StatescopeR framework for discovery of cell states from cell type-specific gene expression profiles inferred from bulk mRNA profiles. doi:10.18129/B9.bioc.StatescopeR, R package version 1.0.1, https://bioconductor.org/packages/StatescopeR.
Generated from the package metadata; it may differ from the package's own citation.
Download
Follow the installation instructions to use this package in your R session.
| Source package | StatescopeR_1.0.1.tar.gz |
| Windows binary (x86_64) | StatescopeR_1.0.1.zip |
| macOS binary (arm64) | StatescopeR_1.0.1.tgz |
| macOS binary (x86_64) | StatescopeR_1.0.1.tgz |
Dependencies
Depends: R (>= 4.5.0)
Imports: S4Vectors, SummarizedExperiment, reticulate, methods, SingleCellExperiment, matrixStats, scran, basilisk, Matrix, ComplexHeatmap, ggplot2, cowplot, utils
Suggests: BiocStyle, knitr, RefManageR, rmarkdown, sessioninfo, scRNAseq, scuttle, testthat