Tools for computational pathology

Official MATLAB implementation of the "Sparse deconvolution" -v1.0.3

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

Self-Supervised Vision Transformers for multiplexed imaging datasets

Precision current source, with optional optical feedback, for driving LEDs and laser diodes

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

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

A convex 3D deconvolution algorithm for low photon count fluorescence imaging

Neuroclear is a deep-learning-based Python module to train a deep neural network for the task of applying super-resolution to degraded axial resolution in fluorescence microscopy, using a single image stack.

Single-cell fluorescence microscopy data analysis

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

File format agnostic low level, high performance API to read and process time-tagged-time resolved (TTTR) data for single-molecule and image spectroscopy (Sample data: https://gitlab.peulen.xyz/skf/tttr-data)

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

PyFRAP: A Python based FRAP analysis tool box

Real-time, interactive exploration of 3D image stacks

RNA smFISH oligos/probes design tool

DDRS4PALS - A software for the acquisition and simulation of positron lifetime spectra (PALS) using the DRS4 evaluation board.

Read Olympus image files (OIF and OIB)

Pair correlation function analysis of fluorescence fluctuations in big image time series