OAD by zeiss-microscopy

Collection of tools and scripts useful to automate microscopy workflows in ZEN Blue using Python and Open Application Development tools and AI tools.

updated at May 17, 2024, 8:11 p.m.

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big-fish by fish-quant

Toolbox for the analysis of smFISH images.

updated at May 16, 2024, 11:26 a.m.

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NCS by HuanglabPurdue

Noise Correction Algorithm for sCMOS cameras

updated at May 15, 2024, 5:29 a.m.

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thunderstorm by zitmen

ThunderSTORM: a comprehensive ImageJ plugin for SMLM data analysis and super-resolution imaging

updated at May 14, 2024, 8:29 a.m.

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EBImage by aoles

Image processing toolbox for R

updated at May 11, 2024, 5:22 p.m.

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FFT by hsueh-lab

Fungal Feature Tracker (FFT): A tool to quantitatively characterize morphology and growth of filamentous fungi

updated at May 11, 2024, 11:23 a.m.

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RhizoVisionExplorer by rootphenomicslab

Application to extract features from plant root images

updated at May 9, 2024, 2:46 p.m.

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SMAP by jries

None

updated at May 9, 2024, 4:37 a.m.

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DECODE by TuragaLab

This is the official implementation of our publication "Deep learning enables fast and dense single-molecule localization with high accuracy" (Nature Methods)

updated at May 8, 2024, 11:01 p.m.

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minerva-story by labsyspharm

Minerva Story is an image viewer that is designed specifically to make it easy for non-expert users to interact with complex tissue images.

updated at May 8, 2024, 6:52 p.m.

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PartSeg by 4DNucleome

Tool for segmentation in bioimaging

updated at May 7, 2024, 9:54 a.m.

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cellshape by Sentinal4D

3D shape analysis using deep learning

updated at May 6, 2024, 9:20 p.m.

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pyotf by david-hoffman

python functions for simulating optical transfer functions

updated at May 5, 2024, 4:14 a.m.

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aradeepopsis by Gregor-Mendel-Institute

A versatile, fully open-source pipeline to extract phenotypic measurements from plant images

updated at May 4, 2024, 6:19 a.m.

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brainreg-napari by brainglobe

Automated 3D brain registration in napari with support for multiple species and atlases.

updated at May 3, 2024, 10:19 p.m.

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nefi by 05dirnbe

Network Extraction From Images

updated at May 3, 2024, 6:09 p.m.

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napari-aicsimageio by AllenCellModeling

Multiple file format reading directly into napari using pure Python

updated at May 3, 2024, 3:26 p.m.

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quanfima by rshkarin

Quanfima (Quantitative Analysis of Fibrous Materials)

updated at May 2, 2024, 6:02 p.m.

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empanada by volume-em

Panoptic segmentation algorithms for 2D and 3D electron microscopy images

updated at May 2, 2024, 3:11 p.m.

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axondeepseg by axondeepseg

Axon/Myelin segmentation using Deep Learning

updated at May 2, 2024, 3:07 p.m.

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