EBImage

Image processing and analysis toolbox for R

Bioconductor version: Release (3.19)

EBImage provides general purpose functionality for image processing and analysis. In the context of (high-throughput) microscopy-based cellular assays, EBImage offers tools to segment cells and extract quantitative cellular descriptors. This allows the automation of such tasks using the R programming language and facilitates the use of other tools in the R environment for signal processing, statistical modeling, machine learning and visualization with image data.

Author: Andrzej Oleś, Gregoire Pau, Mike Smith, Oleg Sklyar, Wolfgang Huber, with contributions from Joseph Barry and Philip A. Marais

Maintainer: Andrzej Oleś <andrzej.oles at gmail.com>

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

Installation

To install this package, start R (version "4.4") and enter:


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

BiocManager::install("EBImage")

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("EBImage")

Introduction to EBImage	HTML	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	Software, Visualization
Version	4.46.0
In Bioconductor since	BioC 1.8 (R-2.3) (18.5 years)
License	LGPL
Depends	methods
Imports	BiocGenerics(>= 0.7.1), graphics, grDevices, stats, abind, tiff, jpeg, png, locfit, fftwtools (>= 0.9-7), utils, htmltools, htmlwidgets, RCurl
System Requirements
URL	https://github.com/aoles/EBImage
Bug Reports	https://github.com/aoles/EBImage/issues

Suggests	BiocStyle, digest, knitr, rmarkdown, shiny
Linking To
Enhances
Depends On Me	CRImage, cytomapper, flowcatchR, DonaPLLP2013, furrowSeg, MerfishData, GiNA, nucim
Imports Me	Cardinal, MoleculeExperiment, RBioFormats, SpatialFeatureExperiment, SpatialOmicsOverlay, bnbc, cytoviewer, flowCHIC, heatmaps, imcRtools, simpleSeg, synapsis, yamss, BioImageDbs, bioimagetools, GoogleImage2Array, LFApp, LOMAR, RockFab, SAFARI
Suggests Me	HilbertVis, Voyager, DmelSGI, spicyWorkflow, aroma.core, cooltools, ExpImage, glow, ijtiff, juicr, lidR, metagear, pliman, rcaiman, SIPmg
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	EBImage_4.46.0.tar.gz
Windows Binary (x86_64)	EBImage_4.46.0.zip
macOS Binary (x86_64)	EBImage_4.46.0.tgz
macOS Binary (arm64)	EBImage_4.46.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/EBImage
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/EBImage
Bioc Package Browser	https://code.bioconductor.org/browse/EBImage/
Package Short Url	https://bioconductor.org/packages/EBImage/
Package Downloads Report	Download Stats