splatter
Simple Simulation of Single-cell RNA Sequencing Data
Bioconductor version: Release (3.19)
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 [aut, cre] (
Maintainer: Luke Zappia <luke at lazappi.id.au>
citation("splatter")
):
Installation
To install this package, start R (version "4.4") 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 |
splatPop simulation | HTML | R Script |
Reference Manual | ||
NEWS | Text | |
LICENSE | Text |
Details
biocViews | GeneExpression, ImmunoOncology, RNASeq, Sequencing, SingleCell, Software, Transcriptomics |
Version | 1.28.0 |
In Bioconductor since | BioC 3.5 (R-3.4) (7.5 years) |
License | GPL-3 + file LICENSE |
Depends | R (>= 4.0), SingleCellExperiment |
Imports | BiocGenerics, BiocParallel, checkmate (>= 2.0.0), crayon, edgeR, fitdistrplus, grDevices, locfit, matrixStats, methods, rlang, S4Vectors, scuttle, stats, SummarizedExperiment, utils, withr |
System Requirements | |
URL | https://bioconductor.org/packages/splatter/ https://github.com/Oshlack/splatter |
Bug Reports | https://github.com/Oshlack/splatter/issues |
See More
Suggests | BASiCS(>= 1.7.10), BiocManager, BiocSingular, BiocStyle, Biostrings, covr, cowplot, GenomeInfoDb, GenomicRanges, ggplot2 (>= 3.4.0), IRanges, igraph, knitr, limSolve, lme4, magick, mfa, phenopath, progress, preprocessCore, pscl, rmarkdown, scales, scater(>= 1.15.16), scDD, scran, SparseDC, spelling, testthat, VariantAnnotation, zinbwave |
Linking To | |
Enhances | |
Depends On Me | |
Imports Me | SCRIP |
Suggests Me | ccImpute, mastR, NewWave, scone, scPCA, smartid, scellpam |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | splatter_1.28.0.tar.gz |
Windows Binary | splatter_1.28.0.zip (64-bit only) |
macOS Binary (x86_64) | splatter_1.28.0.tgz |
macOS Binary (arm64) | splatter_1.28.0.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 3.19 | Source Archive |