End-to-end services for volume EM data analysis
We support researchers and facilities across the full volume EM workflow, from data alignment to annotation, reconstruction, and analysis.
Services
Volume EM Alignment
Pre-processing of large-scale 2D and 3D microscopy datasets for downstream analysis.
● Alignment, stitching, and registration of multi-tile acquisitions● Correction of distortions, gradients, and intensity variations● Output optimized for scalable visualization and processing
Upload your dataset and receive analysis-ready results—no coding or custom tooling required.
Automated neuron segmentation
Reconstruction of biological structures from large-scale 3D microscopy data using AI-assisted workflows.
● Neurons, synapses, organelles, lesions, and other features● Heuristical split and merge error handling● Annotation and proofreading services available● Scalable from gigabyte to petabyte-sized datasets
We apply established models and reconstruction pipelines to generate structured, analysis-ready data.
Annotation services
Generation of high-quality, quality-controlled annotations for connectomics and related applications.
● Semantic and instance annotations (e.g. neurites, nuclei, organelles)● Dense ground truth for model training within selected regions● Managed annotation workflows with expert annotators
Our annotation services include generation of dense training data, neuron skeletonization, and proofreading of automated segmentations.
Custom AI services
Development of tailored machine learning solutions for specific datasets and analysis goals.
● Design and training of segmentation and detection models● Integration of manual annotation and proofreading● End-to-end workflows from data preparation to model deployment
We combine in-house tooling, existing models, and domain expertise to build scalable solutions adapted to your use case.
Zarr Consulting
Support for adopting Zarr as a scalable data format for large microscopy datasets.
● Conversion of existing datasets to Zarr● Optimization for chunking, compression, and access patterns● Integration into cloud or hybrid storage infrastructures
Zarr enables efficient access to large n-dimensional datasets through chunked storage, parallel processing, and compatibility with a growing open ecosystem.