SanityR
This is the development version of SanityR; to use it, please install the devel version of Bioconductor.
R/Bioconductor interface to the Sanity model gene expression analysis
Bioconductor version: Development (3.22)
a Bayesian normalization procedure derived from first principles. Sanity estimates expression values and associated error bars directly from raw unique molecular identifier (UMI) counts without any tunable parameters.
Author: Teo Sakel [aut, cre]
, MCIU/AEI [fnd] (ROR: <https://ror.org/05r0vyz12>, DOI: 10.13039/501100011033)
Maintainer: Teo Sakel <teo at intelligentbiodata.com>
citation("SanityR")):
Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("SanityR")
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("SanityR")| Normalizing scRNA-seq data with Sanity | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | Bayesian, GeneExpression, Normalization, SingleCell, Software |
| Version | 0.99.3 |
| In Bioconductor since | BioC 3.22 (R-4.5) |
| License | GPL (>= 3) |
| Depends | |
| Imports | Rcpp, BiocGenerics, BiocParallel, MatrixGenerics, methods, S4Vectors, scuttle, SingleCellExperiment, SummarizedExperiment |
| System Requirements | |
| URL | https://github.com/TeoSakel/SanityR |
| Bug Reports | https://github.com/TeoSakel/SanityR/issues |
See More
| Suggests | BiocStyle, knitr, rmarkdown, testthat (>= 3.0.0), scater, Rtsne |
| Linking To | Rcpp |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | SanityR_0.99.3.tar.gz |
| Windows Binary (x86_64) | SanityR_0.99.3.zip (64-bit only) |
| macOS Binary (x86_64) | SanityR_0.99.3.tgz |
| macOS Binary (arm64) | SanityR_0.99.3.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/SanityR |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/SanityR |
| Bioc Package Browser | https://code.bioconductor.org/browse/SanityR/ |
| Package Short Url | https://bioconductor.org/packages/SanityR/ |
| Package Downloads Report | Download Stats |