Difference between revisions of "Colors"
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Jmol + JSmol Documentation
AngelHerraez (talk | contribs) (isotope colors) |
AngelHerraez (talk | contribs) (→Support for isotopes) |
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Common isotopes are recognized by Jmol and colored slightly lighter or darker than the element color: | Common isotopes are recognized by Jmol and colored slightly lighter or darker than the element color: | ||
| − | :<sup>2</sup>H = | + | :.........(color code)......(script syntax) |
| − | :<sup>3</sup>H = | + | :<sup>2</sup>H => [xFFFFC0] => _2H, D, deuterium |
| − | :<sup>11</sup>C = [xD8D8D8] (added on 29 Nov. 2007) | + | :<sup>3</sup>H => [xFFFFA0] => _3H, T, tritium |
| − | :<sup>13</sup>C = [x505050] | + | :<sup>11</sup>C => [xD8D8D8] => _11C (added on 29 Nov. 2007) |
| − | :<sup>14</sup>C = [x404040] | + | :<sup>13</sup>C => [x505050] => _13C |
| − | :<sup>15</sup>N = [x105050] | + | :<sup>14</sup>C => [x404040] => _14C |
| + | :<sup>15</sup>N => [x105050] => _15N | ||
Revision as of 09:33, 30 November 2007
- Description of files in Jmol+JSmol distribution
- File formats read or written by Jmol
- The Jmol scripting interface
- Scripting as a programming language
- Complete reference of scripting commands:
- Loading models directly from databases
- Mouse manual
- Default colors used by Jmol
- Atom sets predefined in Jmol
- Support for bond orders · isotopes · stereochemistry · hydrogen bonds
- Jmol as editor
- Multi-touch support
- Copying and pasting state scripts between applets.
- Backward compatibility (changes of behavior across versions)
- Features added since version 10
- Users mailing list (and a mirror)
Default colors used by Jmol
Several users have asked about a guide to colors used by Jmol by default.
This documentation is now available on Jmol website here. Suggestions are welcome for future improvements, via jmol-users mailing list.
The plan is:
- colors for atoms (by element) --done
- colors for chains --done
- colors for groups / residues --done
- alternative color patterns: Jmol, Rasmol, DRuMS --partly done
- anything else?
Support for isotopes
Common isotopes are recognized by Jmol and colored slightly lighter or darker than the element color:
- .........(color code)......(script syntax)
- 2H => [xFFFFC0] => _2H, D, deuterium
- 3H => [xFFFFA0] => _3H, T, tritium
- 11C => [xD8D8D8] => _11C (added on 29 Nov. 2007)
- 13C => [x505050] => _13C
- 14C => [x404040] => _14C
- 15N => [x105050] => _15N
