speckle
This is the development version of speckle; for the stable release version, see speckle.
All Bioconductor versions of speckle
3.24 (devel), 3.23 (release), 3.22, 3.21, 3.20, 3.19, 3.18, 3.17
Statistical methods for analysing single cell RNA-seq data
Bioconductor version: 3.24 · Package version: 1.13.0
The speckle package contains functions for the analysis of single cell RNA-seq data. The speckle package currently contains functions to analyse differences in cell type proportions. There are also functions to estimate the parameters of the Beta distribution based on a given counts matrix, and a function to normalise a counts matrix to the median library size. There are plotting functions to visualise cell type proportions and the mean-variance relationship in cell type proportions and counts. As our research into specialised analyses of single cell data continues we anticipate that the package will be updated with new functions.
Author: Belinda Phipson [aut, cre]
Maintainer: Belinda Phipson <phipson.b at wehi.edu.au>
Citation
From within R, enter citation("speckle"):
Belinda Phipson. speckle: Statistical methods for analysing single cell RNA-seq data. doi:10.18129/B9.bioc.speckle, R package version 1.13.0, https://bioconductor.org/packages/speckle.
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")
## The following initializes the development version of Bioconductor
BiocManager::install(version = "devel")
BiocManager::install("speckle")For older versions of R, please refer to the appropriate Bioconductor release.
Details
| Version | 1.13.0 |
| License | GPL-3 |
| Last updated | 2026-04-28 |
| In Bioconductor since | BioC 3.17 (R-4.3) (3 years) |
| Downloads rank | 350 of 2,456 |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | GeneExpression, RNASeq, Regression, SingleCell, Software |
| Package Short Url | https://bioconductor.org/packages/speckle/ |
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("speckle")| speckle: statistical methods for analysing single cell RNA-seq data | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Download
Follow the installation instructions to use this package in your R session.
| Source package | speckle_1.13.0.tar.gz |
| Windows binary (x86_64) | speckle_1.13.0.zip |
| macOS binary (arm64) | speckle_1.13.0.tgz |
| macOS binary (x86_64) | speckle_1.13.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/speckle |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/speckle |
| Package Downloads Report | Download Stats |