Open Source C Medical Software

A programmable audio generator intended as an aural aid to meditation, implementing the binaural beat principle as described in Gerald Oster's Oct. 1973 Scientific American article "Auditory Beats in the Brain."

Amide's a Medical Image Data Examiner: Amide is a tool for viewing, registering, and analyzing anatomical and functional volumetric medical imaging data sets.

BioSig is a software library for processing of biomedical signals (EEG, ECG, etc.) with Matlab, Octave, C/C++ and Python. About 50 different data formats are supported.

MAGeCK2 is here: https://github.com/davidliwei/mageck2 Model-based Analysis of Genome-wide CRISPR-Cas9 Knockout (MAGeCK) is a computational tool to identify important genes from the recent genome-scale CRISPR-Cas9 knockout screens technology. For instructions and documentations, please refer to the wiki page. MAGeCK is developed by Wei Li and Han Xu from Dr. Xiaole Shirley Liu's lab at Dana-Farber Cancer Institute/Harvard School of Public Health, and is maintained by Wei Li lab at Children's National Medical Center. We thank the support from Claudia Adams Barr Program in Innovative Basic Cancer Research and NIH/NHGRI to develop MAGeCK.

a medical image conversion utility & library; hereby hoping to lower at least one barrier in medical research projects.

MCX is a GPU-accelerated, general-purpose, physically-accurate and feature-rich 3-D light transport simulator. It is one of the fastest simulators because it can use tens of thousands of GPU threads to simulate photons in parallel.

niftilib is a collection of i/o routines for the nifti1 neuroimage data format. C (nifticlib), Java (niftijlib), Matlab (niftimatlib), and Python (pynifti) code is available. For nifti format info see: http://nifti.nimh.nih.gov/

A Sequenced Binaural Wave Generator for Linux+Windows. May be used to generate sounds that entrain the brain's waves to oscillate at selected frequencies to aid in relaxation, lucid dreaming, meditation, clear thought, out-of-body experiences + more

Working hardware has been built and is in a late beta stage. Software is also available.

The MRiLab project is moving to GitHub, the latest version can be obtained from https://leoliuf.github.io/MRiLab/ The MRiLab is a numerical MRI simulation package. It has been developed and optimized to simulate MR signal formation, k-space acquisition and MR image reconstruction. MRiLab provides several dedicated toolboxes to analyze RF pulse, design MR sequence, configure multiple transmitting and receiving coils, investigate magnetic field related properties and evaluate real-time imaging technique. The main MRiLab simulation platform combined with those toolboxes can be applied to customize various virtual MR experiments which can serve as a prior stage for prototyping and testing new MR technique and application. If you find MRiLab useful for your work, please cite this paper: Fast Realistic MRI Simulations Based on Generalized Multi-Pool Exchange Tissue Model. IEEE Transactions on Medical Imaging. 2016. doi: 10.1109/TMI.2016.2620961

This will be a place to release tools that have not yet been added to SciPy (or will not be added for whatever reason). Currently an interface to ImageMagick is here.

The NetEpi project is developing open-source, network-enabled tools for epidemiology and public health practice.

NEW V3 version with RTC and buzzer (require V3+ ECG Logger Viewer application) The ECG Logger project is a Wearable Cardio Monitor for Long-Term (up to 24h) ECG Data Acquisition and Analysis (aka Holter) with an ECG live (real-time) mode. This project provides a very low-cost open-source "Hardware and Software" for a Cardiac Rhythmic Holter. The hardware has been made very simple and is based on an Arduino Nano micro-controller with boards for SD card mass-storage, instrumentation differential amplifier and RTC. It can help monitoring arrhythmia syndromes such as bradycardia, tachycardia, extra-systoles, pause or flutter. WARNING: In no case it can be use to replace a professional medical examination. Device MUST NOT BE CONNECTED to appliance powered by mains - risk of electrical shocks ************************************************************************************** see also: ECG Logger Viewer application : https://sourceforge.net/projects/ecg-logger-viewer/

The project aims at Educational Low Cost Motion Capturing techniques, supporting various file formats such as BVH, ASF/AMC, RIB, MEL etc.

SeaBreeze is a device driver library that provides an interface to select Ocean Optics spectrometers. It is written in C/C++ and builds and runs on Windows (XP/7/8), MacOSX, and Linux (x86/x64/ARM).

[2015-06-12] Orthanc has left SourceForge. All the downloads are now available directly from our official Website: http://www.orthanc-server.com/browse.php

This is a sophisticated & integrated simulation and analysis environment for dynamical systems models of physical systems (ODEs, DAEs, maps, and hybrid systems). It supports symbolic math, optimization, continuation, data analysis, biological apps...

This project, developed at UCL London, provides code for tomographic reconstruction. NiftyRec is written in C and has Python and Matlab extensions. Computationally intensive functions have a GPU accelerated version based on CUDA.

iRad is a DICOM workstation written in Cocoa for MacOSX. Using QuickTime, OpenGL, and open source databases iRad aims to provide an easy and efficient way to review medical images from CT, MRI, ultrasound, and other DICOM sources such as angiography a

WaveSorter emphasizes dynamic visualization and versatility. Slider controls let the user select any coefficient or sample from any of several transforms, which can then be plotted to either axis of a 2D histogram (scatterplot). Within the waveform space, cursor-based controls let the user select subregions of the waveform space or individual waveforms to view. The user may cluster waveforms manually or via one of several popular clustering programs. The classification along with waveform properties (width, etc.) can be saved to disk in simple text files. WaveSorter is written in C++, utilizes the GNU Scientific Library for all computation, and is highly parallelized; on modern hardware it can handle files containing several 100,000s of waveforms per channel with almost no noticeable loss in GUI fluidity and <1sec lags for files with >1,000,000 waveforms per channel. It can be run in batch mode. It supports a wide array of binary file formats as well as ASCII text.

3DBrainExplorer is a lightweight OpenGL-based 3D renderer for scientific visualization of volumetric data (NIfTI) featuring real-time image manipulation, AAL brain labels (Tzourio-Mazoyer et al., 2002), SPM5 statistical images and stereo display.

Matlab tool for plotting multi-channel biomedical signals. It is designed for researchers on both engineering and medicine who have to collaborate to visualize and analyze signals. It is the ideal tool to plot electroencephalogram (EEG), Foetal Heart Rate (FHR) and many other signals with the standard tools used in clinical routine.

The Development System for Auditory Modelling (DSAM) is a computational library designed specifically for producing simulations of the auditory system. It brings together many established auditory models within a flexible programming platform.

amilab is a tool for image processing that includes its own scripting language, and an interface for visualizing 2d/3d images and 3d surfaces. Its main application is medical image processing.

A tool to register and superpose CTF MEG SAM(g2) result and MRI image into one gray-level image.