FISHalyseR

FISHalyseR a package for automated FISH quantification

Bioconductor version: Release (3.20)

FISHalyseR provides functionality to process and analyse digital cell culture images, in particular to quantify FISH probes within nuclei. Furthermore, it extract the spatial location of each nucleus as well as each probe enabling spatial co-localisation analysis.

Author: Karesh Arunakirinathan <akaresh88 at gmail.com>, Andreas Heindl <andreas.heindl at icr.ac.uk>

Maintainer: Karesh Arunakirinathan <akaresh88 at gmail.com>, Andreas Heindl <andreas.heindl at icr.ac.uk>

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

Installation

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


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

BiocManager::install("FISHalyseR")

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("FISHalyseR")

FISHAlyseR Automated fluorescence in situ hybridisation quantification in R	PDF	R Script
Reference Manual	PDF
NEWS	Text

Need some help? Ask on the Bioconductor Support site!

Details

biocViews	CellBiology, Software
Version	1.40.0
In Bioconductor since	BioC 3.1 (R-3.2) (9.5 years)
License	Artistic-2.0
Depends	EBImage, abind
Imports
System Requirements
URL

Suggests	knitr
Linking To
Enhances
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report	Build Report

Package Archives

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

Source Package	FISHalyseR_1.40.0.tar.gz
Windows Binary (x86_64)	FISHalyseR_1.40.0.zip
macOS Binary (x86_64)	FISHalyseR_1.40.0.tgz
macOS Binary (arm64)	FISHalyseR_1.39.0.tgz
Source Repository	git clone https://git.bioconductor.org/packages/FISHalyseR
Source Repository (Developer Access)	git clone git@git.bioconductor.org:packages/FISHalyseR
Bioc Package Browser	https://code.bioconductor.org/browse/FISHalyseR/
Package Short Url	https://bioconductor.org/packages/FISHalyseR/
Package Downloads Report	Download Stats