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FISHalyseR

FISHalyseR a package for automated FISH quantification


Bioconductor version: Release (3.18)

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 "4.3") 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

Details

biocViews CellBiology, Software
Version 1.36.0
In Bioconductor since BioC 3.1 (R-3.2) (9 years)
License Artistic-2.0
Depends EBImage, abind
Imports
System Requirements
URL
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Suggests knitr
Linking To
Enhances
Depends On Me
Imports Me
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Build Report Build Report

Package Archives

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

Source Package FISHalyseR_1.36.0.tar.gz
Windows Binary FISHalyseR_1.36.0.zip (64-bit only)
macOS Binary (x86_64) FISHalyseR_1.36.0.tgz
macOS Binary (arm64) FISHalyseR_1.36.0.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