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analyse-neuron-and-mitochondria

cellpose-napari

napari plugin for cellpose (see www.cellpose.org) - an anatomical segmentation tool

clij

GPU-accelerated image processing for everyone

configurations

Configurations for Marlin Firmware

count-phase-contrats-cells

creation-of-a-rotatable-grid-in-fiji

the code allows you to draw a rectangle (with rotation) on an area defined by the user. This zone is cropped then divided into number of sectors defined by the user

cytocensus

CytoCensus, machine learning software for identifying cells in 3/4-D tissue.

dancing-cells

follow 2 cells in time and calculate the angle of displacement between each time

deepcell-tf

Deep Learning Library for Single Cell Analysis

imagej_export-lif-as-individual-images

ImageJ / Fiji macro to automatically export Leica LIF file as individual images (batch mode available)

macro-_scripting_workshop

macro-fiji-count-mesure-in-the-well-of-24-well-plate

mathematical_morphology_with_morpholibj

A collection of demonstration materials for MorphoLibJ.

napari-omero

neubias-porto2019

Hands-on Python: Plotting and Data Analysis

neubias-ts13

neubias_academy_biapy

NEUBIAS Academy @Home: Interactive Bioimage Analysis with Python and Jupyter

neubias_academy_stardist

neubias_analystschool2020

neubias_ts10_rintro

This repository contains the datasets, the scripts, solutions and slides needed for the 3h course "Introduction to R for bioimage analysis" given by Marion Louveaux during the NEUBIAS Training School 10 for Early Career Investigators in Luxembourg in 2019.

oad

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

onbi_image_analysis

This repository contains the materials for the University of Oxford DTC ONBI Image Analysis course

open-.czi-serie-with-bio-format-and-correct-the-illumination-with-fft

After acquisition in bright background of multiple tiles, there are field homogeneity problems, this prevents correct segmentation and in addition it is not pretty! we perform shading correction via FFT

opencv-python-series

An OpenCV & Python Tutorial Series and Reference.

opendialog-python

To use windows for select your ImageFolder

processing_imagej

python

All Algorithms implemented in Python

python-for-bioimage-analysis

This is the repository for a Python bioimage analysis course which establishes the fundamentals of image analysis in the context of biological imaging.

qcanet

Convolutional Neural Network-Based Instance Segmentation Algorithm to Acquire Quantitative Criteria of Early Mouse Development

quickfigures

QuickFigures is a toolset for creating scientific figures see publication for details