Spot & Foci Detection
Detects, counts, and measures small bright puncta within cells. This is a general-purpose capability that underlies many specific biological assays including DNA damage, RNA quantification, and organelle analysis.
- Ch1: DAPI
- Ch2: channel containing punctate structures (IF, FISH probe, or fluorescent tag)
- Spot count per cell
- Spot area
- Spot intensity
- Total spot area per cell
- % cells with spots
Everything you need for spot & foci detection
Automated, reproducible, and code-free analysis in the cloud
Cloud-based
No software to install, no GPU required. Run analysis from any browser on any device.
Fully automated
Upload your images and get publication-ready results. No coding or scripting needed.
Reproducible
Every analysis is logged and reproducible. Share protocols with collaborators instantly.
How it runs
Cytely automates the image analysis so you can focus on the science.
Segment nuclei/cells from DAPI
Detect puncta in target channel
Count and measure per cell.
Compatibility
Supported
DNA damage foci (γH2AX, 53BP1, RAD51), RNA puncta (RNAscope, smFISH), stress granules (G3BP1), P-bodies (DCP1A), PML bodies, synaptic puncta, receptor clusters, drug aggregates, viral particles, lipid droplets, any sub-cellular punctate structure.
Not yet supported
3D spot detection in Z-stacks, spot tracking over time.
1 Dependent on sample quality
Ready to automate your spot & foci detection analysis?
Get started for free or book a demo to see how Cytely works with your data.
Trusted by leading research institutions
Hundreds of researchers use Cytely to accelerate discovery
Used by researchers at
Simple, transparent pricing
Start free. Upgrade when you need more.
Free
For exploration and learning
$0
Free forever
- 1 monthly analysis credit
- Unlimited public datasets
- Community support
Individual
For active researchers
From $299
per month
- 10+ monthly analysis credits
- Image analysis support
- Priority email support
Lab / Team
For collaborating teams
Custom
Contact us
- 5+ seats included
- Shared folders and templates
- Dedicated support
Loved by researchers
Hear from researchers who use Cytely every day.
The data-driven approach that Cytely offers is a dream to an experienced microscopist like me.
This completely removes bias. The price is negligible when you consider the time spent on image analysis.
It's just amazing what can be done today! Cytely does all the work for me!
Cytely makes me 10 times faster. It saves hours on every experiment.
The insight we gained from Cytely was a completely transformative experience. It allowed us to redesign our experiment and finally move the project forward.
Cytely dramatically improved our timelines while enhancing data reliability through automated, unbiased analysis and significantly larger sample sizes.
With Cytely, we instantly analyzed thousands of cells to precisely identify which were transfected, infected, or both. What had been a three-year roadblock was resolved in our first session.
Curious about this assay?
Book a quick call and our team will help you set up your analysis.
Other assay needs?
Talk to our image analysis specialists. We're adding new assays regularly.