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Blender - Blender is the open source, cross platform suite of tools for 3D creation.
Avogadro - Avogadro is a free, fantastically easy to use molecule editor.
Autodesk 3DS Max - 3ds Max is software for 3D modeling, animation, rendering, and visualization. Create stunning game enrivonments, design visualizations, and virtual reality experiences.
UCSF Chimera - UCSF Chimera is a highly extensible program for interactive visualization and analysis of molecular...
Cinema 4D - Cinema 4D is a 3D modeling, animation, motion graphics and rendering application.
Jmol - Jmol is a free, open source molecule viewer for students, educators, and researchers in chemistry...