Official PyTorch implementation of the "SN2N" -v0.3.5

Pydantic models for the TensorStore Spec

Accurate and efficient spot detection for microscopy data

Create, manage, and run Jupyter notebooks with their dependencies

Ngio is a Python library to streamline OME-Zarr image analysis workflows.

Transformer-based cell tracking for live-cell microscopy

A local-first personal finance app

Morphological profiling using deep learning

This repository provides DINOSim, a method that leverages the DINOv2 foundation model for zero-shot object detection and segmentation in bioimage analysis. DINOSim uses pretrained DINOv2 embeddings…

A highly customizable and improved version of Carmine Spagnuolo's Twenty Seconds Curriculum Vitae.

Deeplay is a deep learning library in Python that extends PyTorch with additional functionalities focused on modularity and reusability.

Utility for visualizing results on the fly in neuroglancer

DeepTrack2 is a modular Python library for generating, manipulating, and analyzing image data pipelines for machine learning and experimental imaging.

🎀 Awesome Zarr resources

Package for extracting and mapping the results of every single tensor operation in a PyTorch model in one line of code.

Euclidean distance & signed distance transform for multi-label 3D anisotropic images using marching parabolas.

Package management made easy

Official repository of "SAMURAI: Adapting Segment Anything Model for Zero-Shot Visual Tracking with Motion-Aware Memory"

Loading and handling microscopy data in blender

Gradient based receptive field estimation for Convolutional Neural Networks

membrane segmentation in 3D for cryo-ET

A framework for easy application of established machine learning techniques on large, multi-dimensional images.

napari plugin for CAREamics

pytest plugin for distributed testing and loop-on-failures testing modes.

Pythonic and parallelizable I/O for N-dimensional imaging data with OME metadata

Simple, fast-loading, n-dimensional array viewer with minimal dependencies.