Abstract
Fluorescent in-situ hybridization (FISH)-based methods are powerful tools to study molecular processes with subcellular resolution, relying on accurate identification and localization of diffraction-limited spots in microscopy images. We developed the Radial Symmetry-FISH (RS-FISH) software that accurately, robustly, and quickly detects single-molecule spots in two and three dimensions, making it applicable to several key assays, including single-molecule FISH (smFISH), spatial transcriptomics, and spatial genomics. RS-FISH allows interactive parameter tuning and scales to large sets of images as well as tera-byte sized image volumes such as entire brain scans using straight-forward distributed processing on workstations, clusters, and in the cloud.
Competing Interest Statement
The authors have declared no competing interest.
Footnotes
Contact: kyle.harrington{at}mdc-berlin.de, Timothee.Lionnet{at}nyulangone.org, preibischs{at}janelia.hhmi.org
This version significantly extends the benchmarks against other softwares, adds large dataset & cloud capability to RS-FISH, and properly cites previous work.
