BisqueRNA: Decomposition of Bulk Expression with Single-Cell Sequencing

Provides tools to accurately estimate cell type abundances from heterogeneous bulk expression. A reference-based method utilizes single-cell information to generate a signature matrix and transformation of bulk expression for accurate regression based estimates. A marker-based method utilizes known cell-specific marker genes to measure relative abundances across samples. For more details, see Jew and Alvarez et al (2019) <doi:10.1101/669911>.

Version:	1.0.5
Depends:	R (≥ 3.5.0)
Imports:	Biobase, limSolve, methods, stats
Suggests:	Seurat, plyr, knitr, rmarkdown, testthat
Published:	2021-05-23
DOI:	10.32614/CRAN.package.BisqueRNA
Author:	Brandon Jew [aut, cre], Marcus Alvarez [aut]
Maintainer:	Brandon Jew <brandon.jew at ucla.edu>
BugReports:	https://github.com/cozygene/bisque/issues
License:	GPL-3
URL:	https://www.biorxiv.org/content/10.1101/669911v1
NeedsCompilation:	no
Materials:	README
In views:	Omics
CRAN checks:	BisqueRNA results

Documentation:

Reference manual:	BisqueRNA.pdf
Vignettes:	Bisque Example Usage

Downloads:

Package source:	BisqueRNA_1.0.5.tar.gz
Windows binaries:	r-devel: BisqueRNA_1.0.5.zip, r-release: BisqueRNA_1.0.5.zip, r-oldrel: BisqueRNA_1.0.5.zip
macOS binaries:	r-release (arm64): BisqueRNA_1.0.5.tgz, r-oldrel (arm64): BisqueRNA_1.0.5.tgz, r-release (x86_64): BisqueRNA_1.0.5.tgz, r-oldrel (x86_64): BisqueRNA_1.0.5.tgz
Old sources:	BisqueRNA archive

Reverse dependencies:

Reverse suggests:

lute, mastR

Linking:

Please use the canonical form https://CRAN.R-project.org/package=BisqueRNA to link to this page.