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FISH software tools | Bioimaging

Fluorescence in situ hybridization (FISH) is used to study the organization and the positioning of specific DNA sequences within the cell nucleus. Analyzing the data from FISH images is a tedious process that invokes an element of subjectivity.Source text:(Shirley et al., 2011)…

FISH steps

FISH-quant
Desktop

FISH-quant

Analyzes molecule FISH and getting the spatial dimension of the transcriptome.…

Analyzes molecule FISH and getting the spatial dimension of the transcriptome. FISH-quant first detects and then localizes mature mRNA in three dimensions by fitting Gaussians to fluorescent spots;…

BayFish
Desktop

BayFish

Deduces models’ parameters from smFISH data. BayFish allows users to provide…

Deduces models’ parameters from smFISH data. BayFish allows users to provide smFISH data at multiple time points before and after induction in a selected mathematical model of stochastic gene…

FISH Finder
Desktop

FISH Finder

A graphical software tool to automatically analyze FISH images that vary…

A graphical software tool to automatically analyze FISH images that vary significantly. By posing the nucleus segmentation as a classification problem, compound Bayesian classifier is employed so…

TANGO
Desktop

TANGO

A program for high-throughput processing and analysis of 3D fluorescence…

A program for high-throughput processing and analysis of 3D fluorescence images, dedicated to the study of nuclear architecture. It allows to perform the complete analysis process starting from the…

NEMO
Desktop

NEMO

A Smart 3D-FISH graphical user interface which provides all information in the…

A Smart 3D-FISH graphical user interface which provides all information in the same place so that results can be checked and validated efficiently. NEMO gives users the ability to drive their…

IMACULAT
Desktop

IMACULAT Image Analysis of Chromosomes for computing localization

Computes localization of whole chromosomes. We partition the cell into…

Computes localization of whole chromosomes. We partition the cell into concentric elliptical compartments of equal areas, and the variance in the quantity of any chromosome is used to determine its…

Smart 3D-FISH
Desktop

Smart 3D-FISH

Automates the process of spot segmentation and distance measurements in images…

Automates the process of spot segmentation and distance measurements in images from 3D-FISH experiments. It can handle any number of fluorescent spots and incorporate images of…

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