DOI: 10.18129/B9.bioc.FISHalyseR    

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

FISHalyseR a package for automated FISH quantification

Bioconductor version: Development (3.9)

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>, Andreas Heindl <andreas.heindl at>

Maintainer: Karesh Arunakirinathan <akaresh88 at>, Andreas Heindl <andreas.heindl at>

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


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))
BiocManager::install("FISHalyseR", version = "3.9")

For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



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


biocViews CellBiology, Software
Version 1.17.0
In Bioconductor since BioC 3.1 (R-3.2) (4 years)
License Artistic-2.0
Depends EBImage, abind
Suggests knitr
Depends On Me
Imports Me
Suggests Me
Links To Me
Build Report  

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

Source Package FISHalyseR_1.17.0.tar.gz
Windows Binary
Mac OS X 10.11 (El Capitan) FISHalyseR_1.17.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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