Tools for computational pathology

Pretraining a foundation model for generalizable fluorescence microscopy-based image restoration

Self-Supervised Vision Transformers for multiplexed imaging datasets

Official Python implementation of the 'Sparse deconvolution'-v0.3.0

ZetaStitcher is a tool designed to stitch large volumetric images such as those produced by Light-Sheet Fluorescence Microscopes.

Point Spread Function calculations for fluorescence microscopy.

An open-source Python library for the analysis of luminescence lifetime and hyperspectral images using the phasor approach.

Resolution Enhancement Algorithm using Deblurring by Pixel Reassignment. This repository implements cutting-edge techniques for improving image resolution and clarity by reassigning pixels to correct for blur. Ideal for microscopy, photography, image processing, and computational optics researchers.

Single-cell fluorescence microscopy data analysis

GLabViz - Interactive Analysis and Visualization Application for Scientific Data written in Python using Qt and pyqtrgaph

PyFRAP: A Python based FRAP analysis tool box

Read and write PicoQuant PTU and related files (PHU, PCK, PCO, PFS, PUS, PQRES, PQDAT, PQUNI, SPQR, and BIN).

RNA smFISH oligos/probes design tool

Read Becker & Hickl SDT files.

Real-time, interactive exploration of 3D image stacks

Read Olympus image files (OIF and OIB).

Laboratory for Fluorescence Dynamics (LFD) file formats.

Read Leica image files (LIF, LOF, XLIF, XLCF, XLEF, and LIFEXT).

Track Fluorescent Protein in Live Cell images with OpenCV

deltaMic: differentiable Microscopy image creator for cell shape inference with active mesh