splatter
This package is for version 3.9 of Bioconductor; for the stable, up-to-date release version, see splatter.
Simple Simulation of Single-cell RNA Sequencing Data
Bioconductor version: 3.9
Splatter is a package for the simulation of single-cell RNA sequencing count data. It provides a simple interface for creating complex simulations that are reproducible and well-documented. Parameters can be estimated from real data and functions are provided for comparing real and simulated datasets.
Author: Luke Zappia
Maintainer: Luke Zappia <luke.zappia at mcri.edu.au>
citation("splatter")):
Installation
To install this package, start R (version "3.6") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("splatter")
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("splatter")| An introduction to the Splatter package | HTML | R Script |
| Splat simulation parameters | HTML | R Script |
| Reference Manual | ||
| NEWS | Text | |
| LICENSE | Text |
Details
| biocViews | GeneExpression, ImmunoOncology, RNASeq, Sequencing, SingleCell, Software, Transcriptomics |
| Version | 1.8.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (7 years) |
| License | GPL-3 + file LICENSE |
| Depends | R (>= 3.4), SingleCellExperiment |
| Imports | akima, BiocGenerics, BiocParallel, checkmate, edgeR, fitdistrplus, ggplot2, locfit, matrixStats, methods, scales, scater(>= 1.7.4), stats, SummarizedExperiment, utils, crayon |
| System Requirements | |
| URL | https://github.com/Oshlack/splatter |
| Bug Reports | https://github.com/Oshlack/splatter/issues |
See More
| Suggests | BiocStyle, covr, cowplot, knitr, limSolve, lme4, progress, pscl, testthat, rmarkdown, S4Vectors, scDD, scran, mfa, phenopath, BASiCS, zinbwave, SparseDC, BiocManager, spelling |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | SummarizedBenchmark |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | splatter_1.8.0.tar.gz |
| Windows Binary | splatter_1.8.0.zip |
| Mac OS X 10.11 (El Capitan) | splatter_1.8.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/splatter |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/splatter |
| Bioc Package Browser | https://code.bioconductor.org/browse/splatter/ |
| Package Short Url | https://bioconductor.org/packages/splatter/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.9 | Source Archive |