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Real-time 3D organoid deconvolution in your browser

High-quality 3D organoid volumes
all with Zero hardware upgrades

deconv3d.ai is an AI-powered web platform for 3D organoid microscopy image restoration and deconvolution. Upload NIfTI volumes from standard or low-cost microscopes, enhance them with our 3D AI model, and download data — no code, no local GPU.

NIfTI: .nii, .nii.gz
Organoid imaging
Low-cost microscope friendly

Designed for labs, cores, and biotechs that want to standardize image quality and unlock more signal from existing microscopes.

  • Browser-based: no installs, VPNs, or IT tickets.
  • Consistent output for screening, QC, and quantification.
  • Ideal pre-processing step for segmentation and downstream AI.
🧠 3D Volume Preview AI deconvolution
NIfTI
Input NIfTI Organoid
AI output Enhanced
3D AI model for organoids
Browser inference

Built for experimental and translational teams

From small academic groups to high-throughput screening labs, deconv3d.ai gives you a reliable, repeatable deconvolution layer in your imaging pipeline.

1. Upload

Drop in your 3D volume

Drag & drop NIfTI (.nii, .nii.gz) Z-stacks directly into the browser. No local installs, drivers, or Python environments to manage.

  • Supports fluorescence organoid Z-stacks
  • Secure, session-based processing
  • Works with data from low-cost microscopes
2. Enhance

AI-powered deconvolution

Our custom 3D AI model denoises, sharpens, and deconvolves while preserving delicate boundaries and small structures critical for quantification.

  • 3D context across the full volume
  • Optimized for fast inference on standard GPUs
  • Trained to avoid hallucinating structures
3. Export

Visualize and download

Scroll through enhanced slices, compare input vs output, and download the deconvolved NIfTI for segmentation, tracking, or downstream AI models.

  • Instant visual QA on representative slices
  • Compatible with napari, Fiji, and Python
  • Ideal for organoid screens and assay readouts

Simple, lab-friendly pricing

Start with evaluation mode, then scale to teams and high-throughput screens. No infrastructure to manage.

For individual researchers
Research & prototyping
Usage-based or institutional license.
  • Ideal for PhD students and postdocs
  • Upload organoid NIfTI volumes directly from your microscope workflow
  • Export deconvolved data for segmentation and analysis
Great for method development, figure generation, and small to medium datasets.
Discuss research access →
For labs, cores & biotechs
Screening & production use
Custom plans for teams and facilities.
  • Centralized deconvolution for multiple microscopes
  • Consistent output across sites, operators, and hardware
  • Optional consult on pipeline integration and QC
Ideal for core facilities, screening labs, and translational teams that need reproducible pipelines.
Talk to us about lab deployment →

Documentation & support

Learn how to format your data, understand outputs, and plug deconv3d.ai into your existing analysis stack.

Upload & file format guide Example organoid datasets Best practices for segmentation after deconvolution Contact support