Count and Analyze Cells from Microscopy Images

A free browser-based cell counter for microscopy images. Upload photos from any microscope and automatically detect and count cells using adaptive thresholding and watershed segmentation. Measure cell areas, analyze fluorescence, calculate concentration, and export publication-ready results.

How to count cells

1
Upload microscopy image

Drag and drop a JPG, PNG, or TIFF photo from your microscope. Adjust brightness and contrast if needed.

2
Detect cells

Click Detect Cells for automatic counting. Adjust threshold and size filters to fine-tune. Click to add or remove missed cells.

3
Export results

Download annotated image, CSV data table, or full report. Use hemocytometer mode to calculate cell concentration.

Detect, count, and analyze cells from microscopy images instantly

Drop your microscopy image here
JPG, JPEG, PNG, TIFF, TIF, BMP, WEBP ·
🔬
Image type
📊
Results
0▾
Total Cells
0
Avg Area
—
Total Area
—
Avg Intensity
—

Features

Automatic cell detection with watershed segmentation Morphology measurements for every cell Hemocytometer concentration calculator Publication-ready export

FAQ

What microscopy types are supported?

Brightfield, phase contrast, fluorescence, and any transmitted light microscopy. Works with photos from phone cameras, USB microscopes, and research-grade systems.

How accurate is the cell counting?

For well-separated cells, accuracy is comparable to manual counting. Touching cells are split using watershed segmentation. You can always add or remove cells manually.

Can I calibrate the scale?

Yes. Draw a scale bar on your image and enter the known distance in µm. All area measurements will be reported in µm² instead of pixels.

💡 Want us to improve this tool just for you?

We can — and it's free! Just send us a quick message with your idea. If you'd like to discuss it in detail, leave your email and we'll get back to you. You can stay anonymous.

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Who is this tool for?
🎓 Students 🏥 Healthcare Professionals
Published Updated