In ChimeraX, models include atomic structures, molecular surfaces, pseudobond models, volume data, marker sets, and graphical objects, for example, those read from BILD format. A model can be read from a file, derived from another model, or created from scratch. Model ID numbers can be assigned automatically or specified by the user.
Models are arranged hierarchically into groups. For example, an NMR ensemble open as model #1 could contain different coordinate sets as submodels #1.1, #1.2, ... #1.10. Hiding #1 hides all of its submodels, regardless of their individual hide/show settings (details...). A submodel is a model in its own right, and the general term “model” may refer to a model at any level of the hierarchy. Models that are grouped automatically include:
Like other tools, the Model Panel can be opened from the Tools menu (more...). It lists the current models, with columns:
Disclosure triangles allow collapsing/expanding the hierarchy when multiple levels are present. Model names and/or ID numbers (and thus groupings) can be changed by double-clicking and entering a new value, or by using the the rename command. See also: Toolbar, info
One or more entries (rows) can be highlighted with the mouse. Buttons on the right act on only the highlighted entries, or if none are highlighted, all entries:
The corresponding commands are shown in the Log.