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Bead Color
- cg-rookie
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8 years 4 months ago #5328
by cg-rookie
Bead Color was created by cg-rookie
Hello,
I have been working on parameterizing a new molecule but am having trouble visualizing the beads in vmd. The structure is made of 40 different beads with 4 different types of beads. When I load the structure into vmd the color scheme does not make sense. Does anyone know how to change/control the bead color in vmd?
Thank you!
I have been working on parameterizing a new molecule but am having trouble visualizing the beads in vmd. The structure is made of 40 different beads with 4 different types of beads. When I load the structure into vmd the color scheme does not make sense. Does anyone know how to change/control the bead color in vmd?
Thank you!
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- Pim
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8 years 4 months ago - 8 years 4 months ago #5331
by Pim
Replied by Pim on topic Bead Color
Hey,
You can find more info on visualisation here:
md.chem.rug.nl/index.php/tutorials-general-introduction/cgviz
md.chem.rug.nl/index.php/rb
It links to a script (cg_bonds.tcl) that you can run in vmd to autoset bonds and colors for martini systems.
It's a bit hard to define the best color for a bead, typically I adapt it manually per system I'm studying.
You can find more info on visualisation here:
md.chem.rug.nl/index.php/tutorials-general-introduction/cgviz
md.chem.rug.nl/index.php/rb
It links to a script (cg_bonds.tcl) that you can run in vmd to autoset bonds and colors for martini systems.
It's a bit hard to define the best color for a bead, typically I adapt it manually per system I'm studying.
Last edit: 8 years 4 months ago by Pim. Reason: clarification
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