PT  - JOURNAL ARTICLE
AU  - Bahry, Ella
AU  - Breimann, Laura
AU  - Zouinkhi, Marwan
AU  - Epstein, Leo
AU  - Kolyvanov, Klim
AU  - Long, Xi
AU  - Harrington, Kyle I S
AU  - Lionnet, Timothée
AU  - Preibisch, Stephan
TI  - RS-FISH: Precise, interactive, fast, and scalable FISH spot detection
AID  - 10.1101/2021.03.09.434205
DP  - 2021 Jan 01
TA  - bioRxiv
PG  - 2021.03.09.434205
4099  - http://biorxiv.org/content/early/2021/10/18/2021.03.09.434205.short
4100  - http://biorxiv.org/content/early/2021/10/18/2021.03.09.434205.full
AB  - 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 StatementThe authors have declared no competing interest.