Software

FISH-quant

Matlab toolbox to analyze single molecule mRNA FISH data. Allows counting the number of mature and nascent transcripts in 3D images. In the new version, we provide the possibility to simulate smFISH images with non-random RNA localization patterns. We also implemented different analysis approaches that allow to statistically identify classes of cells with different localization patterns.

FISH-quant is presented in detail in this paper: https://www.nature.com/articles/nmeth.2406

This paper describes the simulation and analysis of RNA localization data:

Software can be downloaded from this link: https://bitbucket.org/muellerflorian/fish_quant