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Fluorescence Lifetime Ultimate Explorer (FLUTE) is a GUI for exploring and analyzing Fluorescence Lifetime Microscopy (FLIM) data

Python 27 5 Updated Dec 12, 2024

FLIMPA: An open-sourced software for phasor plot analyis of TCSPC-FLIM data

Python 7 3 Updated Dec 23, 2024

Super-resolution napari plugins collection

HTML 5 2 Updated Aug 8, 2024

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

Python 48 3 Updated Apr 24, 2024
JavaScript 9 Updated Oct 8, 2024

ImSwitch is a software solution in Python that aims at generalizing microscope control by providing a solution for flexible control of multiple microscope modalities.

Python 73 53 Updated Oct 23, 2024

User-affordable and versatile light-sheet microscopy system for cleared specimens

Jupyter Notebook 17 Updated Mar 9, 2024

3D Printed Microscope

C 661 47 Updated Jan 6, 2025

SPIMlab is a data acquisition and control software for Light Sheet Microscopy

C++ 2 3 Updated Oct 24, 2024

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

Python 40 7 Updated Sep 12, 2024

A napari plugin for stitching large multi-positioning datasets in 2/3D+t using multiview-stitcher

Python 15 4 Updated Feb 26, 2025

Point-Scanning Super-Resolution 2

Python 7 Updated Jan 3, 2025

Deconvolution of widefield microscopy images and generation of point spread functions

C 45 2 Updated Feb 24, 2025

Generate consensus 3D cells segmentations by combining 2D cell segmentations from any combination of xy, xz, yz views, compatible with outputs of any 2D segmentation method.

MATLAB 12 4 Updated Feb 24, 2025

A napari plugin to process and analyse images with chatGPT!

CSS 270 28 Updated Oct 19, 2024

A flexible SIM reconstruction method capable to handle difficult data prone to reconstruction artifacts.

MATLAB 7 Updated Feb 14, 2025

A platform for compiling, analyzing, and exploring tracking data

Jupyter Notebook 43 4 Updated Feb 27, 2025

napari plugin for trackastra

Python 13 1 Updated Oct 22, 2024

Bringing the ZeroCostDL4Mic experience running everywhere via easy-to-install docker images

Jupyter Notebook 75 10 Updated Feb 25, 2025

Training resources for Students at Uni Leipzig who want to dive into bio-image data science with Python. The material will develop between April and July 2024

Jupyter Notebook 38 19 Updated Jul 9, 2024

Protocol for setting up an automated 3D and multi-colour single-molecule microscope

3 Updated Oct 25, 2023

Basic digital image design, processing, analysis, management, and presentation - datasets and code

Jupyter Notebook 3 Updated Aug 9, 2023

Hardware documentation for mesoSPIM-Bechtop microscope project

HTML 21 5 Updated Feb 28, 2025

A python toolkit for fluorescence microscopy.

Python 22 7 Updated Feb 26, 2025

Virtual Transillumination Microscopy code

C++ 5 3 Updated Aug 14, 2021

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

Jupyter Notebook 470 77 Updated Jan 5, 2024

Accurate and efficient spot detection for microscopy data

Python 70 8 Updated Feb 28, 2025

The Java library to run Deep Learning models

Java 29 6 Updated Feb 26, 2025

Napari plugin automating structured illumination microscopy (SIM) reconstruction and diagnostics from the mcSIM package

Python 1 Updated Aug 2, 2023

Arduino based sensor acquisition

C++ 1 Updated Mar 12, 2019
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