50 Open source projects that are alternatives of or similar to flika

🔬🍸 Home of the ImageJ BAR: A collection of Broadly Applicable Routines for ImageJ

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

Experiments with spiking neural networks (SNNs) in PyTorch. See https://github.com/BINDS-LAB-UMASS/bindsnet for the successor to this project.

Library to make and train a concurrent multilayer perceptron

Brain models implementation with BrainPy

KNIME Image Processing Extension

ImageJ macros and scripts written at the imaging facility MRI

A lightweight python module to interact with atlases for systems neuroscience

Gaussian processes and Bayesian optimization for images and hyperspectral data

Deep and Machine Learning for Microscopy

Tiny Image in Javascript - Edge Detection Algorithms

Lattice light-sheet post-processing utility.

Multiple file format reading directly into napari using pure Python

Automated 3D cell detection and registration of whole-brain images

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

native Python dataclasses for the OME data model

Common Java library for digital image processing books by Burger & Burge (OBSOLETE!)

Python samples for Micro-Manager: image acquisition and microscope control system

CorBinian: A toolbox for modelling and simulating high-dimensional binary and count-data with correlations

sciview is a tool for visualization and interaction with ND image and mesh data

TREES toolbox

Axon/Myelin segmentation using Deep Learning

Python 3 library for analysis of neuroanatomical data

Utilities for pre-processing emission-excitation-matrix (EEM).

Open Delmic Microscope Software

Config and scripts used to run a Nikon Eclipse Ti in the vanNimwegen lab.

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

Code for my master's thesis. Instance segmentation of fluorescence microscopy images with deep learning.

A collection of tools for painting super-resolution images

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

Collection of mathematical morphology methods and plugins for ImageJ

3D skeleton extraction from meshes.

No description or website provided.

An easy neural network for Java!

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

Fast and Accurate 3D PSF Computation for Fluorescence Microscopy

A python and C++ library for reading and writing neuronal morphologies

Single-cell fluorescence microscopy data analysis

Image processing software for textbooks by W. Burger & M. Burge

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

Neuron class provides LNU, QNU, RBF, MLP, MLP-ELM neurons

Plugins for bone image analysis

Fully Ported to Python from ImageJ's Background Subtractor. Rolling ball and sliding paraboloid background subtraction algorithms.

Using Self-Organizing Maps for Travelling Salesman Problem

Burst analysis software for smFRET. **Moved to OpenSMFS organization**

Everything within the Land model (Soil Plant Atmosphere Module, Land Hydrology, etc)

Java (ImageJ/Fiji) software package for 3D deconvolution microscopy

Simple demo of structured illumination microscopy image fusion via Richardson-Lucy deconvolution

A scientific publication, describing a way to improve microscopy. This repository hosts everything you need to reproduce our results. Read the publication here: https://andrewgyork.github.io/remote_refocus/

Manual, source-code and binaries for the NanoJ-Fluidics project