This site is a development preview. As such the content and styling may not be final and is subject to change before going into production. To see more information about the redesign click here.

Menu

Documentation:

R / CRAN packages and documentation

Support

Please read the posting guide. Post questions about Bioconductor to one of the following locations:

spaSim

This is the development version of spaSim; for the stable release version, see spaSim.

Spatial point data simulator for tissue images

Bioconductor version: Development (3.18)

A suite of functions for simulating spatial patterns of cells in tissue images. Output images are multitype point data in SingleCellExperiment format. Each point represents a cell, with its 2D locations and cell type. Potential cell patterns include background cells, tumour/immune cell clusters, immune rings, and blood/lymphatic vessels.

Author: Yuzhou Feng [aut, cre] , Anna Trigos [aut]

Maintainer: Yuzhou Feng <yuzhou.feng at petermac.org>

Citation (from within R, enter citation("spaSim")):

Installation

To install this package, start R (version "4.3") and enter: 

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

# The following initializes usage of Bioc devel
BiocManager::install(version='devel')

BiocManager::install("spaSim")

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("spaSim")
vignette HTML R Script
Reference Manual PDF
NEWS Text

Details

biocViews BiomedicalInformatics, Software, Spatial, StatisticalMethod
Version 1.3.1
In Bioconductor since BioC 3.16 (R-4.2) (1 year)
License Artistic-2.0
Depends R (>= 4.2.0)
Imports ggplot2, methods, stats, dplyr, spatstat.geom, spatstat.random, SpatialExperiment, SummarizedExperiment, RANN
Linking To
Suggests RefManageR, BiocStyle, knitr, testthat (>= 3.0.0), sessioninfo, rmarkdown, markdown
System Requirements
Enhances
URL https://trigosteam.github.io/spaSim/
Bug Reports https://support.bioconductor.org/t/spaSim
See More
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Source Package spaSim_1.3.1.tar.gz
Windows Binary spaSim_1.3.1.zip (64-bit only)
macOS Binary (x86_64) spaSim_1.3.1.tgz
macOS Binary (arm64) spaSim_1.3.1.tgz
Source Repository git clone https://git.bioconductor.org/packages/spaSim
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/spaSim
Bioc Package Browser https://code.bioconductor.org/browse/spaSim/
Package Short Url https://bioconductor.org/packages/spaSim/
Package Downloads Report Download Stats