splatter
This is the released version of splatter; for the devel version, see splatter.
Simple Simulation of Single-cell RNA Sequencing Data
Bioconductor version: Release (3.22)
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] (ORCID:
, GitHub: lazappi), Belinda Phipson [aut] (ORCID:
, GitHub: bphipson), Christina Azodi [ctb] (ORCID:
, GitHub: azodichr), Alicia Oshlack [aut]
Maintainer: Luke Zappia <luke at lazappi.id.au>
citation("splatter")):
Installation
To install this package, start R (version "4.5") 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 | 1.34.0 |
| In Bioconductor since | BioC 3.5 (R-3.4) (8.5 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 http://oshlacklab.com/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), igraph, IRanges, knitr, limSolve, lme4, magick, mfa, phenopath, preprocessCore, progress, pscl, rmarkdown, scales, scater(>= 1.15.16), scDD, scran, SparseDC, spelling, testthat, VariantAnnotation, zinbwave |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | anglemania, ccImpute, HVP, 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_1.34.0.tar.gz |
| Windows Binary (x86_64) | splatter_1.33.1.zip |
| macOS Binary (x86_64) | splatter_1.34.0.tgz |
| macOS Binary (arm64) | splatter_1.34.0.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 |