free (w/ or w/o commercial version)… TriDFusion (3DF) image viewer 22 Mar 202327 Mar 2023 The TriDFusion (3DF) Image Viewer is a MATLABTM-based Multi-Fusion Imaging research software tool designed for physicians, physicist and academic researchers in medical imaging. It is a Multi-Modality & Multidimensional DICOM Image…
free (w/ or w/o commercial version)… RT-UTILS: A minimal Python library for RT Struct manipulation 22 Mar 202327 Mar 2023 RT-Utils has been developed to allow physicians and other users to view the results of segmentation performed on a series of DICOM images. It allows you to create or load…
free (w/ or w/o commercial version)… Open KM Initiative 7 Aug 202227 Mar 2023 The Open Kinetic Modeling (OpenKM) Initiative is aimed at opening up more educational opportunities and research resources on tracer kinetic modeling in the technical community of molecular imaging. The OpenKM…
free (w/ or w/o commercial version)… imlook4d 8 Mar 202227 Mar 2023 Imlook4d is a software tool for visualization of medical images (2D), volumes (3D) and time-dependent volumes (4D). Imlook4d is written in Matlab, which means that it has to be installed…
free (w/ or w/o commercial version)… DEPICT 7 Mar 20227 Mar 2022 A Basis Pursuit Kinetic Modelling Software DEPICT (data-driven estimation of parametric images based on compartmental theory) is a software package written in Matlab 6.5 for the analysis of kinetic radiotracer data. The method…
free (w/ or w/o commercial version)… APPIAN 4 Mar 20224 Mar 2022 APPIAN (Automated Pipeline for PET Image ANalysis) is an open-source automated software pipeline for analyzing PET images in conjunction with MRI. The goal of APPIAN is to make PET tracer…
free (w/ or w/o commercial version)… SAKE 3 Mar 20223 Mar 2022 Spectral Analysis Kinetic Estimation (SAKE): an integrated tool for quantification of PET data. SAKE is an open-source software designed for the easy application of spectral analysis in PET kinetic modeling…
free (w/ or w/o commercial version)… MIRDsoft.org (Radiation Dosimetry Community Platform) 2 Mar 20222 Mar 2022 MIRDsoft.org is a community platform of next generation applications for deriving, reporting, and managing dosimetry data in nuclear medicine, computed tomography, and hybrid imaging. The platform is focused on designing,…
free (w/ or w/o commercial version)… CILViewer 1 Mar 20221 Mar 2022 A simple Viewer for 3D data built with VTK and Python. The interactive viewer CILViewer2D provides: Orthoslicer (slice in x/y/z direction)keyboard interaction'x' slices on the YZ plane'y' slices on the…
free (w/ or w/o commercial version)… NAPARI 28 Feb 20221 Mar 2022 Multi-dimensional image viewer for python napari is a fast, interactive, multi-dimensional image viewer for Python. It’s designed for browsing, annotating, and analyzing large multi-dimensional images. It’s built on top of Qt (for the…
free (w/ or w/o commercial version)… Brain PET Sim + Recon 25 Feb 202225 Feb 2022 A C++ & Matlab-based PET simulation and reconstruction software, enabling realistic brain simulations, e.g. dynamic PiB PET imaging, based on the system matrix of the advanced brain-dedicated High Resolution Research…
free (w/ or w/o commercial version)… PET Sim & Recon 25 Feb 202221 Mar 2023 A Matlab-based PET simulation and reconstruction framework with analytical modeling of system matrix, capable of incorporating various degrees of spatial resolution's Point Spread Function (PSF) modeling. Synthetic NEMA NU2 true…
free (w/ or w/o commercial version)… OMEGA 1 May 202114 May 2021 OMEGA is an open-source MATLAB/GNU Octave Emission and Transmission Tomography Software. The purpose of OMEGA is twofold. It has been created and maintained by Ville-Veikko Wettenhovi. OMEGA is designed primarily…
free (w/ or w/o commercial version)… FIREVOXEL 1 Mar 202123 Jul 2021 FireVoxel is a medical imaging software for analysis and display of medical images. The emphasis is on fitting the kinetic models to the dynamic MRI, CT, PET, and SPECT acquisitions. Also…
free (w/ or w/o commercial version)… Phantom Analysis Toolkit (PAT) – Cloud-based service 24 Aug 202026 Feb 2022 SNMMI’s PET/CT Phantom Analysis Toolkit (PAT) Accreditation programs (e.g., Joint Commission, ACR) are increasingly requiring phantom-based PET/CT scanner measurements to provide evidence of quantitative accuracy and qualitative clinical image quality.…
free (w/ or w/o commercial version)… IAEA-NMQC 24 Aug 202024 Aug 2020 The IAEA Nuclear Medicine Quality Control (NMQC) Toolkit is a set of ImageJ (Fiji edition)-based codes developed in Java v.1.8 that allow the processing and analysis of nuclear medicine images…
free (w/ or w/o commercial version)… Mango: Multi-image Analysis GUI 15 Jun 202021 Aug 2020 Mango – short for Multi-image Analysis GUI – is a viewer for medical research images. It provides analysis tools and a user interface to navigate image volumes. Versions There are…
free (w/ or w/o commercial version)… QModeling: an Open-Source Toolbox for PET Kinetic Analysis 15 Jun 202012 Aug 2020 QModeling is a multi-platform toolbox for SPM to fit reference-region kinetic models (currently supporting SRTM, SRTM2, Patlak Reference and Logan Reference Plots) to dynamic PET imaging data. The toolbox was…
free (w/ or w/o commercial version)… SERA: Standardized Environment for Radiomics Analysis 15 Jun 202012 Aug 2020 The Standardized Environment for Radiomics Analysis (SERA) Package is a Matlab®-based framework developed at Johns Hopkins University that calculates radiomic features based on guidelines from the Image Biomarker Standardization Initiative…
free (w/ or w/o commercial version)… kinfitr: PET kinetic modeling using R 15 Jun 202012 Aug 2020 kinfitr is a package for PET Kinetic Modelling Using R. The main goal of this package is to equip PET modelers with great flexibility, while simultaneously making it easier to…
free (w/ or w/o commercial version)… itk-SNAP 15 Jun 202012 Aug 2020 ITK-SNAP is a software application used to segment structures in 3D medical images. It is an interactive software application that allows users to navigate three-dimensional medical images, manually delineate anatomical…
free (w/ or w/o commercial version)… ITK: The Insight Toolkit 15 Jun 202012 Aug 2020 Insight Toolkit (ITK), also known as Insight Segmentation and Registration Toolkit, is an open-source, cross-platform library that provides developers with an extensive suite of software tools for image analysis. Developed…
free (w/ or w/o commercial version)… CERR: Computational Environment for Radiological Research 21 Aug 201931 Mar 2021 CERR (pronounced 'sir'), stands for Computational Environment for Radiological Research. CERR is MATLAB based software platform for developing and sharing research results using radiation therapy treatment planning and imaging informatics.…
free (w/ or w/o commercial version)… Imager-4D: Viewer for dynamic PET studies with integrated Patlak and radiomics analysis 21 Aug 201912 Aug 2020 The Imager-4D is a novel PET viewer that allows the user to view dynamic PET data and to derive dynamic and radiomic parameters from that data. This includes the ability…
free (w/ or w/o commercial version)… ASIM (Analytic PET Simulator) 4 Jun 201927 Jun 2019 ASIM is a software package designed as a fast analytic simulator for positron emission scanners. This process uses a "Monte-Carlo" approach to allow the rapid generation of multiple realizations with…
free (w/ or w/o commercial version)… Occiput.io (iLang engine) 1 Feb 201927 Jun 2019 Occiput is an Open Source Tomographic reconstruction software for PET, PET-MRI and SPECT in 2D, 3D (volumetric) and 4D (spatio-temporal) in Python, using GPUs. The design of occiput.io makes it…
free (w/ or w/o commercial version)… STIR (Software for Tomographic Image Reconstruction) 1 Jan 201912 Aug 2020 Description: STIR is an Open Source software for use in tomographic imaging. Its aim is to provide a Multi-Platform Object-Oriented framework for all data manipulations and corrections in tomographic imaging.…
free (w/ or w/o commercial version)… EMrecon 1 Jan 201912 Aug 2020 EMrecon is an Expectation Maximization Based Image Reconstruction Framework for Emission Tomography Data. The EMrecon project was started in 2006 as an open reconstruction software for the quadHIDAC wirechamber small animal PET…
free (w/ or w/o commercial version)… MCNP (Monte-Carlo N-Particle) Transport Code 1 Jan 201927 Jun 2019 Description: MCNP is a general-purpose Monte Carlo N-Particle code that can be used for neutron, photon, electron, or coupled neutron/photon/electron transport. Specific areas of application include, but are not limited…
free (w/ or w/o commercial version)… PyRadiomics (Radiomics Feature Extraction in Python) 1 Jan 201912 Aug 2020 PyRadiomics is an open-source python package for the extraction of Radiomics features from medical imaging. This package aims to establish a reference standard for Radiomics Analysis, and provide a tested…
free (w/ or w/o commercial version)… NiftyRec Tomography Toolbox 1 Jan 201927 Jun 2019 NiftyRec is a software for tomographic reconstruction, providing the fastest GPU-accelerated reconstruction tools for emission and transmission computed tomography. NiftyRec supports a wide range of modalities: Positron Emission Tomography (PET)…
free (w/ or w/o commercial version)… RaCaT (Radiomics Calculator) 1 Jan 201912 Aug 2020 RaCaT is an easy to use radiomic feature calculator, which provides the calculation of a large number of radiomic features for all kind of medical images, which are in compliance…
free (w/ or w/o commercial version)… EGS (Electron Gamma Shower) 1 Jan 201927 Jun 2019 Description: The EGS computer code system is a general purpose package for the Monte Carlo simulation of the coupled transport of electrons and photons in an arbitrary geometry for particles…
free (w/ or w/o commercial version)… TIRIUS (Tomographic Image Reconstruction Interface of the Universite de Sherbrooke) 1 Jan 201927 Jun 2019 TIRIUS (Tomographic Image Reconstruction Interface of the Universite de Sherbrooke) is a Qt-based user-interface software for reconstructing 3D images from data generated by real apparatus or generated by the GATE Monte…
free (w/ or w/o commercial version)… SIMIND 1 Jan 201912 Aug 2020 Description: SIMIND is a Monte Carlo simulation code supporting the description of standard clinical SPECT cameras which can be easily modified for various types of calculations or measurements encountered in…
free (w/ or w/o commercial version)… ASTRA toolbox 1 Jan 201927 Jun 2019 The ASTRA Toolbox is a MATLAB and Python toolbox of high-performance GPU primitives for 2D and 3D tomography. The supported geometries are 2D parallel, fan beam, as well as 3D…
free (w/ or w/o commercial version)… GAMoS (Geant4-based Architecture for Medicine-Oriented Simulations) 1 Jan 201927 Jun 2019 Description: GAMOS, the Geant4-based Architecture for Medicine-Oriented Simulations, facilitates the use of Geant4 by providing a simple script language that covers almost all the needs of a nuclear medicine simulation.…
free (w/ or w/o commercial version)… TomoPy (Tomographic Reconstruction in Python) 1 Jan 201912 Aug 2020 TomoPy is an open-source Python package for tomographic data processing and image reconstruction. It features image reconstruction algorithms for tomography. various filters, ring removal algorithms, phase retrieval algorithms. forward projection operator…
free (w/ or w/o commercial version)… Radiomics Tools (by M Vallieres) 1 Jan 201912 Aug 2020 A package providing MATLAB programming tools for radiomics analysis. This package contains 5 folders: 'TextureToolbox': MATLAB codes to perform texture analysis from an input 2D or 3D region of interest…
free (w/ or w/o commercial version)… PeneloPET 1 Jan 201927 Jun 2019 Description: PeneloPET is a Monte Carlo code capable of performing realistic simulations for pixelated scintillator based PET scanners. It is based on PENELOPE, a toolkit for Monte Carlo Simulation of…
free (w/ or w/o commercial version)… QSPECT 1 Jan 201931 May 2023 QSPECT is an open-source Image Reconstruction application for SPECT data. It includes Maximum Likelihood Expectation Maximization (MLEM) and Ordered Subsets Expectation Maximization (OSEM) as well as a suitable Graphical User Interface…
free (w/ or w/o commercial version)… AMIDE 1 Jan 201912 Aug 2020 AMIDE stands for “Amide's a Medical Image Data Examiner”. The package is a completely free tool for viewing, analyzing, and registering volumetric medical imaging data sets. It has been written…
free (w/ or w/o commercial version)… SimSET (Simulation System for Emission Tomography) 1 Jan 201927 Jun 2019 The SimSET package uses Monte Carlo techniques to model the physical processes and instrumentation used in emission imaging. Official Website Source Code: Link 1 & Link 2 Tutorials: Link 1…
free (w/ or w/o commercial version)… FLUKA 1 Jan 201912 Aug 2020 FLUKA is a fully integrated particle physics Monte Carlo simulation package. It has many applications in high energy experimental physics and engineering, shielding, detector and telescope design, cosmic ray studies,…
free (w/ or w/o commercial version)… VMC (the Visual Monte Carlo Program) 1 Jan 201927 Jun 2019 VMC is a computer program that simulates the irradiation of the human body by external sources. It uses a voxel phantom produced at Yale University and the Monte Carlo technique…
free (w/ or w/o commercial version)… GATE (Geant4 Application for Tomography Emission) 1 Jan 201917 May 2021 Description: Geant4 Application for Tomography Emission (GATE) is an advanced open-source software developed by the international OpenGATE collaboration and dedicated to numerical simulations in medical imaging and radiotherapy. It currently…
free (w/ or w/o commercial version)… MIPAV (Medical Image Processing, Analysis and Visualization) 1 Jan 201912 Aug 2020 The MIPAV (Medical Image Processing, Analysis, and Visualization) application enables quantitative analysis and visualization of medical images of numerous modalities such as PET, MRI, CT, or microscopy. Using MIPAV's standard…
free (w/ or w/o commercial version)… IBEX (Imaging Biomarker Explorer) 1 Jan 201912 Aug 2020 IBEX (imaging biomarker explorer) is an open infrastructure software platform that flexibly supports common radiomics workflow tasks such as multimodality image data import and review, development of feature extraction algorithms,…
free (w/ or w/o commercial version)… 3DSlicer 1 Jan 201912 Aug 2020 3DSlicer is an open source software platform for medical image informatics, image processing, and three-dimensional visualization. Built over two decades through support from the National Institutes of Health and a…
free (w/ or w/o commercial version)… FreeSurfer 1 Jan 201912 Aug 2020 FreeSurfer is an open-source software suite for processing and analyzing (human) brain MRI images. It can support Skullstripping, Image Registration, Subcortical Segmentation, Cortical Surface Reconstruction, Cortical Segmentation, Cortical Thickness Estimation,…
free (w/ or w/o commercial version)… CONRAD 1 Jan 201912 Aug 2020 CONRAD is a software framework for cone-beam imaging in radiology. The software package includes different simulation tools that are able to generate 4-D projection and volume data and respective vector…
free (w/ or w/o commercial version)… AIR tools II – Algebraic Iterative Reconstruction Methods 1 Jan 201912 Aug 2020 AIR tools II is a MATLAB-based package provides efficient, robust and flexible implementations of algebraic iterative reconstruction (AIR) methods for computing regularized solutions to discretize inverse problems, such as computed…
free (w/ or w/o commercial version)… TIGRE (Tomographic Iterative GPU-based Reconstruction) 1 Jan 201927 Jun 2019 TIGRE is a MATLAB and Python/CUDA toolbox for fast and accurate 3D tomographic reconstruction (any geometry), created jointly by University of Bath's Engineering Tomography Lab and CERN. The aim of…
free (w/ or w/o commercial version)… VSPLINE (Vector spline smoothing package) 1 Jan 201912 Aug 2020 VSPLINE package implements previously published smoothing spline algorithms. Official Website Source Code Tutorials Reference Paper
free (w/ or w/o commercial version)… LIFEx 1 Jan 201912 Aug 2020 LIFEx is a freeware enabling the calculation of a broad range of conventional, textural and shape indices from PET, MR, US and CT images. The software is written in Java…
free (w/ or w/o commercial version)… TERSE (transmission and emission reconstruction environment for SPECT) 1 Jan 201912 Aug 2020 TERSE: a transmission and emission reconstruction environment for SPECT, has been developed at the University of Michigan by Jeff Fessler and Edward Ficaro, in a collaboration between the Department of…
free (w/ or w/o commercial version)… ASPIRE (A sparse precomputed iterative reconstruction algorithm) 1 Jan 201927 Jun 2019 ASPIRE (a sparse precomputed iterative reconstruction library) is a collection of ANSI C programs for tomographic image reconstruction developed at the University of Michigan by Jeff Fessler and his students.…
free (w/ or w/o commercial version)… UCLA Tracer Kinetic Model Fitting (TKMF) Program 1 Jan 201912 Aug 2020 The Tracer Kinetic Model Fitting (TKMF) Program is a server-based tracer kinetic analysis software program that is accessible through the Internet. It provides the general capability of tracer kinetic model…
free (w/ or w/o commercial version)… Carimas 1 Jan 201912 Aug 2020 Carimas is a general medical imaging processing platform developed in Turku PET Centre in Finland. Carimas is for research use only – not for use in diagnostic procedure. Originally, Carimas…
free (w/ or w/o commercial version)… PET-RD-tools 1 Jan 201912 Aug 2020 PET-RD-tools is a collection of command line utilities for PET-MR (pre)-processing. The tools have been designed for validating and extracting raw PET data, and associated files, for the purposes of…
free (w/ or w/o commercial version)… Fiji (just as ImageJ) 1 Jan 201912 Aug 2020 Fiji is an image processing package—a "batteries-included" distribution of ImageJ, bundling a lot of plugins which facilitate scientific image analysis. Fiji is easy to install and has an automatic update function, bundles a lot of…
free (w/ or w/o commercial version)… MIAKAT 1 Jan 201912 Aug 2020 MIAKAT™ is a fully quantitative suite of analysis tools for PET neuroimaging data. The software includes functionality for motion correction of dynamic image sequences, neuoranatomical parcellation of regions of interest…
free (w/ or w/o commercial version)… XNAT (the Extensible Neuroimaging Archive Toolkit) 1 Jan 201912 Aug 2020 XNAT is an open source imaging informatics platform developed by the Neuroinformatics Research Group at Washington University. XNAT was originally developed at Washington University in the Buckner Lab, which is now…
free (w/ or w/o commercial version)… MIRT (Michigan Image Reconstruction Toolbox) 1 Jan 201927 Jun 2019 The Michigan Image Reconstruction Toolbox (MIRT) is a collection of open source algorithms for image reconstruction (and related imaging problems) written in Matlab (MathWorks Inc.) language. This software was developed…
free (w/ or w/o commercial version)… SPM – Statistical Parametric mapping 1 Jan 201912 Aug 2020 Statistical Parametric Mapping (SPM) refers to the construction and assessment of spatially extended statistical processes used to test hypotheses about functional imaging data. These ideas have been instantiated in software…
free (w/ or w/o commercial version)… COMKAT (COmpartment Model Kinetic Analysis Tool) 1 Jan 201912 Aug 2020 COMKAT is a MATLAB software for compartmental modeling oriented to nuclear medicine applications (PET & SPECT). It supports models of a wide range complexity including multiple injection, receptor model with…
free (w/ or w/o commercial version)… Vinci (Volume Imaging in Neurological Research) 1 Jan 201912 Aug 2020 VINCI (“Volume Imaging in Neurological Research”) was designed for the visualization and analysis of volume data generated by medical tomography systems with special emphasis on the needs for brain imaging…
free (w/ or w/o commercial version)… PETPVC: toolbox for partial volume correction in PET 1 Jan 201912 Aug 2020 PETPVC is a toolbox for partial volume correction (PVC) in positron emission tomography (PET). The package offers a method for applying partial volume correction (PVC) to positron emission tomography (PET)…
free (w/ or w/o commercial version)… PETstep & dPETstep – (dynamic) PET Simulator of Tracers via Emission Projection 1 Jan 201912 Aug 2020 PETstep is a fast analytic PET simulator designed in MATLAB environment for high throughput simulation of PET images. It allows a full simulation of a user defined activity distributions (objects)…
free (w/ or w/o commercial version)… KesnerDDG – Data-driven respiratory gating of PET list-mode data 1 Jan 201912 Aug 2020 KesnerDDG is research software that can be used for data driven respiratory motion correction in PET imaging. This software was built as a free tool to be available for researchers…
free (w/ or w/o commercial version)… QIICR (Quantitative Image Informatics for Cancer Research) 1 Jan 201912 Aug 2020 QIICR: open source imaging informatics tools based on 3D Slicer to support research workflows of the NCI Quantitative Imaging Network.QIICR is supported by the NIH National Cancer Institute ITCR program,…
free (w/ or w/o commercial version)… NiftyPET 1 Jan 201912 Aug 2020 NiftyPET is an open source Python package for image reconstruction and analysis with uncertainty estimation as well as support for high-throughput parallel processing using GPU computing. The pipeline of the…
free (w/ or w/o commercial version)… CASToR (Customizable and Advanced Software for Tomographic Reconstruction) 1 Jan 201912 Aug 2020 CASToR is an open-source multi-platform project for 4D emission (PET and SPECT) and transmission (CT) tomographic reconstruction. This platform is a scalable software providing both basic image reconstruction features for…
free (w/ or w/o commercial version)… ImageJ (Image Processing and Analysis in Java) 1 Jan 201912 Aug 2020 ImageJ is a public domain Java image processing program inspired by NIH Image for the Macintosh. It runs, either as an online applet or as a downloadable application, on any…
free (w/ or w/o commercial version)… SIRF (Synergistic Image Reconstruction Framework) for Biomedical Imaging 1 Jan 201912 Aug 2020 The CCP (Collaborative Computational Project) in synergistic image reconstruction for biomedical imaging (SyneRBI), formerly known as CCP PET-MR (Collaborative Computational Project in synergistic PET-MR image reconstruction), project has led to…
NMMItools 