165 Open source projects that are alternatives of or similar to imaging_tools

CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: https://git.io/ciatah_docs. Formerly known as calciumImagingAnalysis (ciapkg).

All things Miniscope v4

Just Another Tool for Online Studies

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

Flow-based synchronized parallel DAQ from diverse sources and flexible control for neuroscience experiments

A virtual optogenetics laboratory

Reorganising NIfTI files from dcm2niix into the Brain Imaging Data Structure

Julia package for reading and writing DICOM (Digital Imaging and Communications in Medicine) files

Train PyTorch Models using the Genetic Algorithm with PyGAD

Multi-modal Image Registration And Connectivity anaLysis

Some GIMP scripts

MNE-BIDS is a Python package that allows you to read and write BIDS-compatible datasets with the help of MNE-Python.

One-Shot Object Appearance Learning using Spiking Neural Networks

📊 Gene expression in neuroexpresso database

A MINiscope 1-photon-based Calcium Imaging Signal Extraction PIPEline.

🔧🧠 MEEGkit: MEG & EEG processing toolkit in Python 🧠🔧

medical image visualization library and development toolkit

MATLAB/Octave GIfTI Library

A good foundation for your next frontend project.

NeuroAI-UW seminar, a regular weekly seminar for the UW community, organized by NeuroAI Shlizerman Lab.

Deep learning in a spiking neural network using segregated dendrites.

Public release of The Cole-Anticevic Brain-wide Network Partition (CAB-NP)

NEURON User Interface

A toolbox for inferring spikes from calcium traces.

Super-Resolution imaging with Convolutional Neural Network library for G++, Non-OpenCV model.

Code for running a multicolor structured illumination microscopy (SIM) experiment using a DLP6500 digital micromirror device (DMD) and performing SIM reconstruction.

Resources for data driven neuroscientists.

Method container for computational neuroscience on brains.

Tools and libraries that deal with the creation and processing of images.

Example with Cortex V2 API

Keras for Science

A lightweight python module to interact with atlases for systems neuroscience

Extended edit similarity measurement for high dimensional discrete-time series signal (e.g., multi-unit spike-train).

VisualQC : assistive tool to ease the quality control workflow of neuroimaging data.

Code Generation Framework For NEURON MODeling Language

Qt capture software for astronomy, mainly planetary shooting

Software platform for clinical neuroimaging studies

Windows Sample in C#, C++, Python, LabVIEW and Java

Convolutional AutoEncoder application on MRI images

Easy to use DICOMWEB enabled PACS with DIMSE services based on sqlite database

Digital Imaging of Root Traits: Extract trait measurements from images of monocot and dicot roots.

Interactive Brain Playground - Browser based tutorials on EEG with webbluetooth and muse

Python 3 library for analysis of neuroanatomical data

AntroPy: entropy and complexity of (EEG) time-series in Python

Dynamic Time Warping in Python / C (using ctypes)

Nuerapse simulations for SNNs

Time series visualizer and data processing tools for Electrocorticography (ECoG) signals stored in NWB files, for Python.

Curate, visualize, annotate, and share your behavioral ephys data using Python

Main TVB codebase

Segmentation of 3D shapes in a common anatomical space

MRQy is a quality assurance and checking tool for quantitative assessment of magnetic resonance imaging (MRI) data.

BIDScoin converts your source-level neuroimaging data to BIDS

Python-based module with spike sorter wrappers and a simple API for running them.

Helping researchers in routine procedures for data collection

A python package for Abel and inverse Abel transforms

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

Spiking neural network system

Converts raw image (img) files into full flash update (FFU) files

Systems Neuroscience Computing in Python: user-friendly analysis of large-scale electrophysiology data

PyoMyo - Python Opensource Myo armband library