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Automated brain slice analysis for neuroscientists

Upload your DAPI-stained brain slices and get accurate cell counts, brain atlas registration, and cell classification — without manual counting or custom scripts.

Core workflows for mouse brain slice analysis

Register the Full Atlas Once, Analyze Any Region Later

Automated mouse brain atlas registration from a single 4x DAPI slice with precise 20x overlay alignment.

NeuroQP turns one 4x DAPI upload into a complete brain atlas registration that supports your whole study. 20x fields are placed on top of the registered 4x slice, and quick manual refinements ensure high-quality alignment. Since the entire atlas is available, you can update brain region selections later without redoing the registration process.

Whole 4x mouse brain slice with atlas overlayZoomed atlas registration points on a mouse brain slice20x staining aligned to registered 4x atlas reference

Automated 20x DAPI Cell Detection in Seconds

High-quality automated cell detection on 20x DAPI microscopy images without manual threshold tuning.

NeuroQP performs automated cell detection directly on 20x DAPI microscopy images with strong precision and speed. You get reliable detections without hand-tuned threshold pipelines. This helps teams scale brain slice analysis while maintaining quality.

20x DAPI image with automated cell detections

Train a Cell Classifier for Any Staining

Create staining-specific cell classification models directly from your own 20x microscopy data.

Create staining-specific classifiers by annotating examples directly on your 20x images. The model trains quickly, returns instant predictions, and guides you on what to improve next for better performance. NeuroQP handles infrastructure, training pipelines, and compute so your team can focus on biology.

20x staining image with classified cellsClassifier training interface with sample selection

Publication-Ready Brain Region Plots, Instantly

Interactive region-level neuroscience plots with SVG-ready outputs for manuscripts and figures.

Results from atlas registration and cell classification flow directly into brain region statistics. Build configurable plots with custom grouping, color schemes, and plot types for rapid exploratory analysis. Export as SVG for direct figure assembly or final editing before publication.

Heatmap plot of region-level neuroscience resultsMirrored plot comparing neuroscience groupsAnatomical plot with brain region results

Frequently asked questions

Stop counting cells by hand

Join the waitlist to be among the first researchers to access automated brain slice analysis. Upload your images, get accurate results — no plugins, no scripts, no manual counting.