GRAL is a library for creating high quality plots and charts in Java. Many plot types are available like scatter plot, bubble plots, line plots, area plots, pie charts, and bar charts. Additionally, GRAL can exchange and process data (smoothing), and various plug-ins allow the import and export of data and graphics to formats like CSV, JPEG, PNG, EPS, PDF, or SVG.
BRL-CAD is a powerful constructive solid geometry solid modeling system that includes an interactive geometry editor, ray-tracing support for rendering and geometric analysis, path-tracing for realistic image synthesis, network distributed framebuffer support, and image and signal-processing tools.
VectorGraphics2D can export Java painting operations to Encapsulated PostScript (EPS), Scalable Vector Graphics (SVG), or Portable Document Format (PDF) files. It supports the rendering of all geometric shapes provided by the Java language. More advanced features like transparency or clipping paths can be used as well. It has a very small footprint and can be easily used as a replacement for Java's java.awt.Graphics2D class.
SaVi is satellite visualization software that lets you create, run, examine, and modify satellite orbits in two and three dimensions. Simulations of Iridium, Globalstar, Galileo, GPS, and other satellite constellations are included. SaVi requires Tcl and Tk on a system with Unix libraries. SaVi works well with the 3D renderer Geomview. Geomview is optional, though recommended for its 3D rendering capabilities.
VisIt is an interactive parallel visualization and graphical analysis tool for viewing scientific data. Users can quickly generate visualizations from their data, animate them through time, manipulate them, and save the resulting images for presentations. VisIt contains a rich set of visualization features so that you can view your data in a variety of ways. It can be used to visualize scalar and vector fields defined on two- and three-dimensional (2D and 3D) structured and unstructured meshes. It was designed to interactively handle very large data set sizes in the terascale range, and works well down to small data sets in the kilobyte range.
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.
PDFreactor is a formatting processor to convert HTML and XML to PDF. It uses Cascading Style Sheets (CSS) to define page layout and styles. It allows you to dynamically generate PDF documents such as invoices, delivery notes, shipping documents, or print versions of Web content on-the-fly. Vector graphics (SVG), barcodes, MathML, XSLT, and CMYK colors are supported. All common J2EE application servers are supported. Complete .NET, PHP, Perl, Python, and Ruby APIs are included. Direct integration into automatic build processes using Apache Ant is also possible.
The Chemistry Development Kit (CDK) is a library of Java classes for chemo-, bioinformatics, computational chemistry, and chemometrics. It provides important algorithms like substructure search, SMILES, Gasteiger charges, QSAR descriptor calculation, 3D structure generation, 2D layout and rendering, many IO formats, atom typing, and more.