Display options

The CifVis widget provides several display options that can be controlled via attributes. Mode attributes use kebab-case; if a display mode is incompatible with a structure, the widget falls back to an applicable mode. The concepts behind these modes are explained in General → The structure model.

Hydrogen modes

Hydrogen atoms hidden:

Hydrogen atoms displayed:

Anisotropic hydrogens:

Disorder modes

2D disorder — all parts shown:

2D disorder — group1of2 only:

2D disorder — group2of2 only:

ADP representations and render modes

Choose adpRepresentation: "ellipsoid" for probability ellipsoids or adpRepresentation: "rmsd-peanut" for RMS displacement PEANUT surfaces. The separate renderStyle option selects a clean 3D, explanatory 3D, or publication presentation.

Solid

Cutout

2D

The same presentation selector applies to RMS displacement PEANUT surfaces:

PEANUT solid

PEANUT detail

PEANUT publication

The render style is set through the JSON options attribute (options='{"renderStyle":"cutout-2d"}') — see Options Reference → Rendering for the full description of each style and the plot2D* tuning options.

Growing symmetry

You can grow the symmetry one additional sphere using bonds or hydrogen bonds contained in the CIF tables:

Asymmetric unit:

Grow with both bond types:

The full set of values is none, hbonds, fragment, fragment-hbonds, cell, and fragment-cell — fragment modes grow through bonds, H-bonds, or both; cell modes display the complete unit cell, optionally with connected fragments.

Atom labels

Labels are opt-in and can be set through the atom-labels attribute or options.atomLabels. They have their own dedicated section — see Atom Labels and in particular Labels in the widget.

Everything else

All remaining appearance and behaviour settings go through the JSON options attribute, which is passed unchanged to the internal CrystalViewer — see the attributes reference and the Options Reference.