A lean and kind Open Microscopy Environment (OME) Next Generation File Format (NGFF) Zarr implementation.

3D/4D volumetric rendering of microscopy data

Tools for distributed alignment of massive images

Implementation of the Leiden algorithm for various quality functions to be used with igraph in Python.

Schedule-Free Optimization in PyTorch

StarDist - Object Detection with Star-convex Shapes

A Python module for accessing Hamamatsu DCIMG files

Neuropixels trajectory explorer with the Allen CCF mouse atlas

Semantic segmentation models with 500+ pretrained convolutional and transformer-based backbones.

An automatic deep learning algorithm for spot detection in fluorescence microscopy images.

A Fiji/ImageJ plugin to generate ROIs from label images, allowing ROI erosion and quantification

Train Alexnet with grayscale imagenet

Multichannel time series lossless compression in pure Python based on NumPy and zlib

PYthon Neural Analysis Package 🍍

PyTorch version of Stable Baselines, reliable implementations of reinforcement learning algorithms.

A training framework for Stable Baselines3 reinforcement learning agents, with hyperparameter optimization and pre-trained agents included.

Provides an uniform layer to support PyQt5, PySide2, PyQt6, PySide6 with a single codebase

Python-based module for extracting from, converting between, and handling optical imaging data from several file formats. Inspired by SpikeInterface.

Read and write ImageJ ROI format

Full-featured nd2 (Nikon NIS Elements) file reader for python. Outputs to numpy, dask, and xarray. Exhaustive metadata extraction

Simple pure-python module for reading and writing nrrd files.

Load MATLAB 7.3 .mat files. I.e. load hdf5 into Python datatypes.

a python wrapper to the FLIR PySpin API to capture synchronized video

Missing widgets and components for Qt-python

A library for efficient similarity search and clustering of dense vectors.