StatescopeR
This is the released version of StatescopeR; for the devel version, see StatescopeR.
StatescopeR framework for discovery of cell states from cell type-specific gene expression profiles inferred from bulk mRNA profiles
Bioconductor version: Release (3.23)
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.
Author: Mischa Steketee [aut, cre] 
, Bauke Ylstra [ths] , Yongsoo Kim [ths] , KWF Kankerbestrijding [fnd]
Maintainer: Mischa Steketee <m.f.b.steketee at amsterdamumc.nl>
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.
Installation
To install this package, start R (version "4.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("StatescopeR")For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("StatescopeR")| Introduction to StatescopeR | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | Bayesian, GeneExpression, RNASeq, SingleCell, Software, Transcriptomics |
| Version | 1.0.1 |
| In Bioconductor since | BioC 3.23 (R-4.6) (< 6 months) |
| License | MIT + file LICENSE |
| Depends | R (>= 4.5.0) |
| Imports | S4Vectors, SummarizedExperiment, reticulate, methods, SingleCellExperiment, matrixStats, scran, basilisk, Matrix, ComplexHeatmap, ggplot2, cowplot, utils |
| System Requirements | |
| URL | https://github.com/tgac-vumc/StatescopeR |
| Bug Reports | https://github.com/tgac-vumc/StatescopeR/issues |
See More
| Suggests | BiocStyle, knitr, RefManageR, rmarkdown, sessioninfo, scRNAseq, scuttle, testthat |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report, r-universe |
Package Archives
Follow 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 (big-sur-x86_64) | StatescopeR_1.0.1.tgz |
| macOS Binary (sonoma-arm64) | StatescopeR_1.0.1.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/StatescopeR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/StatescopeR |
| Package Short Url | https://bioconductor.org/packages/StatescopeR/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.23 | Source Archive |