LiteMol:Use Cases - Revision history

Midlik at 13:58, 6 August 2016

2016-08-06T13:58:44Z

← Older revision		Revision as of 13:58, 6 August 2016
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	{{col-2}}		{{col-2}}
	=~~Visualizing PDBe Sequence Annotations And Validation Reports~~=		=Visualization of Electron Density Maps=
	{{#evt:		{{#evt:
	service=youtube		service=youtube
	\|id=https://www.youtube.com/watch?v=~~C91ArK0hduU~~		\|id=https://www.youtube.com/watch?v=obOKHFyXftM
	\|alignment=center		\|alignment=center
	\|dimensions=640x480		\|dimensions=640x480
	\|autoresize=true		\|autoresize=true
	\|description=~~How to load sequence annotations from PDBe and use distinctive coloring for the annotated parts of biomolecule structure.~~ How to visualize ~~structure quality using PDBe validation data~~.		\|description=How to visualize electron density maps.
	}}		}}

	{{col-2}}		{{col-2}}
			=Biological Assemblies And Crystal Symmetry=
			{{#evt:
			service=youtube
			\|id=https://www.youtube.com/watch?v=n-9yScdVzV8
			\|alignment=center
			\|dimensions=640x480
			\|autoresize=true
			\|description=Reconstructing biological assemblies from an asymmetric unit, using crystal symmetry operations to reconstruct neighbors in the crystal lattice.
			}}

	{{col-end}}		{{col-end}}

			{{col-begin}}

			{{col-2}}
	~~<br style="clear:both" />~~
	~~=Visualization of Electron Density Maps=~~



	~~''The video is being prepared.''~~


	~~=Biological Assemblies And Crystal Symmetry=~~

	~~Reconstructing biological assemblies from an asymmetric unit, using crystal symmetry operations to reconstruct neighbors in the crystal lattice.~~

	~~''The video is being prepared.''~~


	=Visualizing PDBe Sequence Annotations And Validation Reports=		=Visualizing PDBe Sequence Annotations And Validation Reports=
			{{#evt:
			service=youtube
			\|id=https://www.youtube.com/watch?v=C91ArK0hduU
			\|alignment=center
			\|dimensions=640x480
			\|autoresize=true
			\|description=How to load sequence annotations from PDBe and use distinctive coloring for the annotated parts of biomolecule structure. How to visualize structure quality using PDBe validation data.
			}}

	~~How to load sequence annotations from PDBe and use distinctive coloring for the annotated parts of biomolecule structure. How to visualize structure quality using PDBe validation data.~~		{{col-2}}

	~~''The video is being prepared.''~~


	=Using Selections=		=Using Selections=

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	''The video is being prepared.''		''The video is being prepared.''

			{{col-end}}

Midlik at 15:38, 4 August 2016

2016-08-04T15:38:44Z

@@ Line 2: / Line 2: @@
 This page shows instructions for the most typical and most useful operations that LiteMol can perform.
 {{col-begin}}
 {{col-2}}
 =Basics=
 {{#evt:
@@ Line 14: / Line 15: @@
 |description=Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.
 }}
 {{col-2}}
 =Visual Representations=
@@ Line 24: / Line 26: @@
 |description=How to load electron density data and visualize density isosurfaces.
 }}
 {{col-end}}
 <br style="clear:both" />

Lukas at 14:00, 24 July 2016

2016-07-24T14:00:35Z

← Older revision		Revision as of 14:00, 24 July 2016
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	This page shows instructions for the most typical and most useful operations that LiteMol can perform.		This page shows instructions for the most typical and most useful operations that LiteMol can perform.
			{{col-begin}}
			{{col-2}}

	=Basics=		=Basics=
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	\|description=Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.		\|description=Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.
	}}		}}
			{{col-2}}


	~~<br style="clear:both" />~~
	=Visual Representations=		=Visual Representations=
			{{#evt:
	~~[[File:LiteMol-VideoVisuals.png\|200px\|thumb\|left~~\|~~LiteMol User Manual: Visuals\|link~~=https://www.youtube.com/~~embed/~~9EzoWh1_mFI]]		service=youtube
			\|id=https://www.youtube.com/watch?v=9EzoWh1_mFI
	How to ~~create and update visual representations of molecules, different types of representations~~ and ~~their parameters~~.		\|alignment=center
			\|dimensions=640x480
			\|autoresize=true
			\|description=How to load electron density data and visualize density isosurfaces.
			}}
			{{col-end}}

	<br style="clear:both" />		<br style="clear:both" />
	=Visualization of Electron Density Maps=		=Visualization of Electron Density Maps=

	~~How to load electron density data and visualize density isosurfaces.~~

	''The video is being prepared.''		''The video is being prepared.''

Lukas at 15:35, 22 July 2016

2016-07-22T15:35:55Z

← Older revision		Revision as of 15:35, 22 July 2016
Line 5:		Line 5:

	=Basics=		=Basics=
			{{#evt:
	~~[[File:LiteMol-VideoBasics.png\|200px\|thumb~~\|~~left\|LiteMol User Manual: Basics\|link~~=https://www.youtube.com/~~embed/~~sG-8uU5gvoI]]		service=youtube
			\|id=https://www.youtube.com/watch?v=sG-8uU5gvoI
	Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.		\|alignment=center
			\|dimensions=640x480
			\|autoresize=true
			\|description=Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.
			}}

Midlik at 17:49, 21 July 2016

2016-07-21T17:49:52Z

← Older revision		Revision as of 17:49, 21 July 2016
Line 5:		Line 5:

	=Basics=		=Basics=

			[[File:LiteMol-VideoBasics.png\|200px\|thumb\|left\|LiteMol User Manual: Basics\|link=https://www.youtube.com/embed/sG-8uU5gvoI]]

	Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.		Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.

	~~[[File:LiteMol-VideoBasics.png\|200px\|thumb\|left\|LiteMol User Manual: Basics\|link=https://www.youtube.com/embed/sG-8uU5gvoI]]~~


	<br style="clear:both" />		<br style="clear:both" />
	=Visual Representations=		=Visual Representations=

			[[File:LiteMol-VideoVisuals.png\|200px\|thumb\|left\|LiteMol User Manual: Visuals\|link=https://www.youtube.com/embed/9EzoWh1_mFI]]

	How to create and update visual representations of molecules, different types of representations and their parameters.		How to create and update visual representations of molecules, different types of representations and their parameters.


			<br style="clear:both" />
	=Visualization of Electron Density Maps=		=Visualization of Electron Density Maps=

	How to load electron density data and visualize density isosurfaces.		How to load electron density data and visualize density isosurfaces.

			''The video is being prepared.''


Line 25:		Line 31:

	Reconstructing biological assemblies from an asymmetric unit, using crystal symmetry operations to reconstruct neighbors in the crystal lattice.		Reconstructing biological assemblies from an asymmetric unit, using crystal symmetry operations to reconstruct neighbors in the crystal lattice.

			''The video is being prepared.''


Line 30:		Line 38:

	How to load sequence annotations from PDBe and use distinctive coloring for the annotated parts of biomolecule structure. How to visualize structure quality using PDBe validation data.		How to load sequence annotations from PDBe and use distinctive coloring for the annotated parts of biomolecule structure. How to visualize structure quality using PDBe validation data.

			''The video is being prepared.''


Line 35:		Line 45:

	How to use selection algebra to retrieve particular regions of a structure, such as specific residues, atoms, or chains.		How to use selection algebra to retrieve particular regions of a structure, such as specific residues, atoms, or chains.

			''The video is being prepared.''

Midlik at 03:46, 21 July 2016

2016-07-21T03:46:12Z

← Older revision		Revision as of 03:46, 21 July 2016
Line 8:		Line 8:
	Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.		Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.

	[[File:LiteMol:VideoBasics.png\|200px\|thumb\|left\|LiteMol User Manual: Basics\|link=https://www.youtube.com/embed/sG-8uU5gvoI]]		[[File:LiteMol-VideoBasics.png\|200px\|thumb\|left\|LiteMol User Manual: Basics\|link=https://www.youtube.com/embed/sG-8uU5gvoI]]

Midlik at 03:43, 21 July 2016

2016-07-21T03:43:22Z

← Older revision		Revision as of 03:43, 21 July 2016
Line 11:		Line 11:


			<br style="clear:both" />
	=Visual Representations=		=Visual Representations=

Midlik at 03:39, 21 July 2016

2016-07-21T03:39:10Z

← Older revision		Revision as of 03:39, 21 July 2016
Line 8:		Line 8:
	Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.		Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.

	[https://www.youtube.com/embed/sG-8uU5gvoI]		[[File:LiteMol:VideoBasics.png\|200px\|thumb\|left\|LiteMol User Manual: Basics\|link=https://www.youtube.com/embed/sG-8uU5gvoI]]

Midlik at 03:14, 21 July 2016

2016-07-21T03:14:24Z

← Older revision		Revision as of 03:14, 21 July 2016
Line 7:		Line 7:

	Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.		Introduction to LiteMol environment, loading a molecular structure, using basic controls and settings, mouse tricks, interactive usage.

			[https://www.youtube.com/embed/sG-8uU5gvoI]

Midlik at 01:41, 21 July 2016

2016-07-21T01:41:58Z

← Older revision		Revision as of 01:41, 21 July 2016
Line 1:		Line 1:
	__NOTOC__		__NOTOC__

	This page shows instructions for the most typical and useful operations that LiteMol can perform.		This page shows instructions for the most typical and most useful operations that LiteMol can perform.