The program converts both a 3D density map and an atom model into GMM (gaussian mixture model). EM (expectation maximization) algorithm is employed for conversion into GMM. The program gmconvert also has many other useful functions to handle GMM.

The program superimposes molecular subunits into the density map of their complex. To reduce computational costs for the superimposing, both subunits and complexes are transformed into GMM (Gaussian Mixture Model). Transformation of molecular models into GMM can be done using another program gmconvert. The program is designed to superimpose multiple atomic models of subunits into a low-resolution 3D density map, however, it is also applied to superimposing two 3D density maps, or two atomic models.

a graphical installation client used to install the SBGrid software collection on Apple OSX computers running MacOSX v10.9 - 10.12. Users can cherrypick a subset of applications for installation on their laptops or desktops. Software updates are highlighted, but users trigger the software update manually at their convenience.

a highly extensible, interactive molecular graphics program for interactive visualization and analysis of molecular structures and related data, including density maps, supramolecular assemblies, sequence alignments, docking results, trajectories, and conformational ensembles. It is often a tool of choice for rendering EM volumes.

(Collaborative Computational Project, Number 4) a collection of programs and associated data and software libraries used for macromolecular structure determination by X-ray crystallography.

a multi-GPU program that corrects beam-induced sample motion on dose fractionated movie stacks. It implements a robust iterative alignment algorithm that delivers precise measurement and correction of both global and non-uniform local motions at single pixel level across the whole frame, suitable for both single-particle and tomographic images.

a next-generation molecular visualization program, following UCSF Chimera. Compared to Chimera, ChimeraX has improved graphics (e.g., interactive ambient shadows), faster handling of large structures (millions of atoms), and a more modern, single-window user interface. ChimeraX will have documented programming interfaces and an easy-to-use “Tool Shed” web repository of extensions.