User contributions for Inchoate
Jump to navigation
Jump to search
17 April 2009
- 16:3716:37, 17 April 2009 diff hist +20 Practical Pymol for Beginners →The PyMol Interface
- 16:3616:36, 17 April 2009 diff hist +489 N Category:Specular Reflections New page: '''Specular reflection''' is the perfect, mirror-like reflection of light (or sometimes other kinds of wave) from a surface, in which light from a single incoming direction (a ray) is refl... current
- 16:3316:33, 17 April 2009 diff hist +459 N Specular intensity New page: = Overview = This controls how PyMOL displays specular reflections in the GUI (unrendered). This is analogous to Spec_power for ray traced images. Values range form [0, 200+]. = Syn... current
- 16:3016:30, 17 April 2009 diff hist +422 N Specular New page: = Overview = This controls whether or not specular reflections are shown unrendered, in the GUI. Turning this off only makes a slight improvement in speed. = Syntax = <source lang="pytho...
- 16:2616:26, 17 April 2009 diff hist +14 Spec power No edit summary current
- 16:2616:26, 17 April 2009 diff hist +309 N Spec power New page: = Overview = This setting controls the power of specular reflections. = Syntax = <source> # set the power set spec_power, float # turn up the reflections set spec_power, 200 </source> =...
- 16:2616:26, 17 April 2009 diff hist +711 N Spec direct power New page: = Overview = This controls the direct specular power. Essentially, this is how strongly surfaces that are perpendicular to the ray drawn from the camera are rendered. The features seems ... current
- 16:2516:25, 17 April 2009 diff hist +34 Spec reflect No edit summary
- 16:2316:23, 17 April 2009 diff hist 0 N File:Spec dir power.gif No edit summary current
- 16:1616:16, 17 April 2009 diff hist +566 Nm Spec direct New page: = Overview = This setting controls how PyMOL renders the direct specular reflection from a representation. This image shows an increasing Spec_direct setting from 0 to 1.0 [[Image:Sp... current
- 16:1416:14, 17 April 2009 diff hist +22 N File:Spec direct.gif increasing spec_direct current
- 15:5715:57, 17 April 2009 diff hist +511 N Solvent radius New page: = Overview = This defines the solvent radius. Changing the solvent radius in PyMOL affects how PyMOL interprets surfaces, [[Displaying_Biochemical_Properties#Surface-R... current
- 14:5414:54, 17 April 2009 diff hist −18 Main Page No edit summary
- 14:4714:47, 17 April 2009 diff hist +866 N Opaque background New page: = Overview = This setting controls how PyMOL renders the background. If this opaque setting is '''on''' then the background is drawn as a solid color depending on your background color se... current
- 14:4314:43, 17 April 2009 diff hist +24 N File:Sq2.png Surface_quality set to 2 current
- 14:4114:41, 17 April 2009 diff hist +9 Surface quality No edit summary
- 14:3914:39, 17 April 2009 diff hist +355 N Ellipsoid color New page: = Overview = This setting controls the color of ellipsoids. = Syntax = <source lang="python"> # proper settings are colors set ellipsoid_color, color # for example set it to blue set ell... current
- 14:3914:39, 17 April 2009 diff hist +1,185 N Surface quality New page: = Overview = This controls how well PyMOL draws surfaces. Lower values, like 0, are rough surface approximations. These low values are good for speed--especially for larger surfaces. Fo...
- 14:3814:38, 17 April 2009 diff hist +591 N Ellipsoid quality New page: = Overview = This setting determines how much refinement PyMOL uses in rendering ellipsoids. Other representations have similar settings. The most often use...
- 14:3714:37, 17 April 2009 diff hist +22 Color No edit summary
- 14:3114:31, 17 April 2009 diff hist +25 N File:Sq0.png Surface quality down to 0 current
- 14:3114:31, 17 April 2009 diff hist +26 N File:Sqd.png surface_quality to default current
- 14:2214:22, 17 April 2009 diff hist +361 N Ellipsoid scale New page: = Overview = This sets the relative scale of drawing Ellipsoids. Larger numbers make larger ellipsoids. = Syntax = <source lang="python"> # set to some real valued size set ellipsoid... current
- 14:2114:21, 17 April 2009 diff hist +492 N Ellipsoid transparency New page: = Overview = This controls the level of Transparency with which PyMOL renders ellipsiods. Setting this to 0 means full opacity (no transparency); setting this to 1.0 means fully trans... current
16 April 2009
- 12:0912:09, 16 April 2009 diff hist +103 N Seq view alignment New page: = Overivew = = Syntax = <source lang="python"> </source> = See Also = Category:Seqeuence_Viewer current
- 12:0912:09, 16 April 2009 diff hist +104 N Seq view discrete by state New page: = Overivew = = Syntax = <source lang="python"> </source> = See Also = Category:Seqeuence_Viewer current
- 12:0912:09, 16 April 2009 diff hist +104 N Seq view unaligned mode New page: = Overivew = = Syntax = <source lang="python"> </source> = See Also = Category:Seqeuence_Viewer current
- 12:0912:09, 16 April 2009 diff hist +276 N Seq view unaligned color New page: = Overivew = Sets the colors of unaligned residues in the sequence viewer. = Syntax = <source lang="python"> # set the color set seq_view_unaligned_color, color # for example set seq_vie...
- 12:0612:06, 16 April 2009 diff hist +597 N Seq view label spacing New page: = Overivew = This controls how the sequence indices are shown in the sequence viewer. Setting this to 1 means every index will be shown, setting this to 5, means that every 5th residue in... current
- 12:0512:05, 16 April 2009 diff hist +40 N File:Svl10.png Sequence_viewer label spacing set to 10. current
- 12:0512:05, 16 April 2009 diff hist +38 N File:Svl5.png Sequence_viewer label spacing set to 5 current
- 12:0012:00, 16 April 2009 diff hist +301 N Seq view fill char New page: = Overivew = This set the character used for filler. The default is '-'. = Syntax = <source lang="python"> # set the fill character to some character, c set seq_view_fill_char, c # for ...
- 11:5711:57, 16 April 2009 diff hist +359 N Seq view color New page: = Overivew = This setting controls the color that the sequences in the sequence viewer are displayed. = Syntax = <source lang="python"> # set the color to 'color' # valid colors are any P...
- 11:5211:52, 16 April 2009 diff hist +30 m Seq view overlay No edit summary current
- 11:5211:52, 16 April 2009 diff hist +23 Seq view location No edit summary current
- 11:5111:51, 16 April 2009 diff hist +31 Seq view label mode No edit summary current
- 11:5111:51, 16 April 2009 diff hist +31 Seq view label color No edit summary
- 11:5111:51, 16 April 2009 diff hist +31 Seq view format No edit summary
- 09:3509:35, 16 April 2009 diff hist +63 Ambient No edit summary
- 09:3309:33, 16 April 2009 diff hist +53 N File:AmbientScale.gif Animated gif showing increasing ambient from 0 to 1.0 current
- 09:2509:25, 16 April 2009 diff hist +22 Internal gui width No edit summary current
- 09:2509:25, 16 April 2009 diff hist +22 Internal gui mode No edit summary current
- 09:2509:25, 16 April 2009 diff hist +22 Internal gui control size No edit summary current
- 09:2509:25, 16 April 2009 diff hist +22 Internal gui No edit summary
- 09:2509:25, 16 April 2009 diff hist +22 Internal feedback No edit summary current
- 09:2409:24, 16 April 2009 diff hist +22 Wrap output No edit summary current
- 09:2409:24, 16 April 2009 diff hist +22 Light9 Redirecting to Light current
- 09:2409:24, 16 April 2009 diff hist +22 Light8 Redirecting to Light current
- 09:2409:24, 16 April 2009 diff hist +22 Light7 Redirecting to Light current
- 09:2409:24, 16 April 2009 diff hist +22 Light6 Redirecting to Light current