Aeskulap is a medical image viewer. It is able to load a series of special images stored in the DICOM format for review. It is able to query and fetch DICOM images from archive nodes (also called PACS) over the network. The goal of this project is to create a full open source replacement for commercially available DICOM viewers. It is based on gtkmm, glademm, and gconfmm and designed to run under Linux. Ports of these packages are available for different platforms. It should be quite easy to port It to any platform were these packages are available.
OIO is a Web-based metadata/data management front-end which is built using Zope and works with Postgresql. No programming is required to build and manage Web-forms or to perform data mining/analysis on the collected data. It is in production at the Harbor/UCLA Medical Center for clinical outcomes management and research data. Forms created with OIO and hosted on any OIO server can be downloaded as XML files. Once downloaded from the "Forms library" and imported into an OIO server, the necessary database tables are automatically recreated and the imported forms become immediately available to the users of that OIO server.
The National Library of Medicine Insight Segmentation and Registration Toolkit (ITK) is a software system to support the Visible Human Project. Segmentation is the process of identifying and classifying data found in a digitally sampled representation. Registration is the task of aligning or developing correspondences between data. For example, in the medical environment, a CT scan may be aligned with an MRI scan in order to combine the information contained in both.
VMD (Visual Molecular Dynamics) is designed for the visualization and analysis of biological systems such as proteins, nucleic acids, lipid bilayer assemblies, etc. It may be used to view more general molecules, as VMD can read standard Protein Data Bank (PDB) files and display the contained structure. VMD provides a wide variety of methods for rendering and coloring a molecule: simple points and lines, CPK spheres and cylinders, licorice bonds, backbone tubes and ribbons, cartoon drawings, and others. VMD can be used to animate and analyze the trajectory of a molecular dynamics (MD) simulation. In particular, VMD can act as a graphical front end for an external MD program by displaying and animating a molecule undergoing simulation on a remote computer. VMD uses OpenGL and OpenGL Programmable Shading Language for high performance rendering of large structures.
BALLView is an extensible viewer for bio-molecular structures. It provides all standard models and offers rich functionality for molecular modeling and simulation, including molecular mechanics methods (AMBER, CHARMM, and MMFF94 force fields), continuum electrostatics methods employing a Finite-Difference Poisson Boltzmann solver, secondary structure calculation, molecular editing and docking. Since BALLView is based on BALL (the Biochemical ALgorithms Library), it is easily extensible on the level of C++ code. In addition, it provides a Python interface with Integrated Development Environment features to allow interactive rapid prototyping.
Raster3D is a set of powerful tools for generating high quality raster images of proteins or other molecules. The core program renders spheres, triangles, cylinders, and quadric surfaces with specular highlighting, Phong shading, and shadowing. It uses an efficient software Z-buffer algorithm that is independent of any graphics hardware.
PLOTICUS is a command line utility for creating bar, line, pie, boxplot, scatterplot, sweep, heatmap, vector, timeline, Venn diagrams, and other types of charts and plots. ploticus is good for automated or just-in-time graph generation. It handles date, time, and categorical data nicely, and has some basic statistical capabilities. It can output to GIF, PNG, SVG, SWF, JPEG, PostScript, EPS, and X11. You can use convenient preset options or create complex scripts with rich and detailed color and style operations.
Mathnetics is an API for creating advanced, interactive, Web-based mathematical applications. It defines various important mathematical objects that are inter-related and on which many numerical calculations can be done. It also features rendering of 3D objects onto an SVG canvas (to do so, it includes certain utilities such as browser sniffing, DOM node selection, and DOM readiness detection), which is quite robust. A few basic 3D objects are given (Line, Sphere, Cube), but the user can define any 3D object desired as per the specification.
Seg3D is a volume editing and processing tool that combines a flexible manual segmentation interface with powerful higher-dimensional image processing and segmentation algorithms from the Insight Toolkit. DICOM, VFF, META, NRRD, and many other volume formats are supported. Users can explore and label image volumes using configurable, orthogonal slice view windows and 3D volume rendering.