To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("scDD")
In most cases, you don't need to download the package archive at all.
scDD
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Mixture modeling of single-cell RNA-seq data to indentify genes with differential distributions
Bioconductor version: Release (3.5)
This package implements a method to analyze single-cell RNA- seq Data utilizing flexible Dirichlet Process mixture models. Genes with differential distributions of expression are classified into several interesting patterns of differences between two conditions. The package also includes functions for simulating data with these patterns from negative binomial distributions.
Author: Keegan Korthauer
Maintainer: Keegan Korthauer <keegan at jimmy.harvard.edu>
Citation (from within R,
enter citation("scDD")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("scDD")
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("scDD")
| R Script | Using scDD | |
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Bayesian, Clustering, DifferentialExpression, MultipleComparison, RNASeq, SingleCell, Software, Visualization |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (0.5 years) |
| License | GPL-2 |
| Depends | R (>= 3.4) |
| Imports | fields, mclust, BiocParallel, outliers, ggplot2, EBSeq, arm, SummarizedExperiment, grDevices, graphics, stats, S4Vectors, scran |
| LinkingTo | |
| Suggests | BiocStyle, knitr, gridExtra |
| SystemRequirements | |
| Enhances | |
| URL | https://github.com/kdkorthauer/scDD |
| BugReports | https://github.com/kdkorthauer/scDD/issues |
| Depends On Me | |
| Imports Me | |
| Suggests Me | splatter |
| Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | scDD_1.0.0.tar.gz |
| Windows Binary | scDD_1.0.0.zip |
| Mac OS X 10.11 (El Capitan) | scDD_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/scDD |
| Package Short Url | http://bioconductor.org/packages/scDD/ |
| Package Downloads Report | Download Stats |
Documentation »
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