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SAMSON Connect
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Добавлен 2 мар 2015
The RUclips channel of SAMSON Connect - www.samson-connect.net. Get the source code for tutorials, and more, at github.com/SAMSON-Connect/SAMSON-Elements.
Clipping molecular structures in SAMSON
To activate clipping in SAMSON, hold Ctrl + Shift and click where you would like the clipping plane to be (or in the void to stop clipping). You can then use Ctrl + Shift + Wheel to move the clipping plane. (PDBx/mmCIF model code 3J3Q, 2.4 million atoms, color by chain ID, illustrative).
Get SAMSON at www.samson-connect.net
Get SAMSON at www.samson-connect.net
Просмотров: 2 807
Видео
Freezing atoms in SAMSON
Просмотров 2379 месяцев назад
To control atoms mobility during minimization or simulation, use the Freeze (shortcut F) and Unfreeze (shortcut U) commands. Frozen atoms have a dark blue overlay in the viewport. Get SAMSON at www.samson-connect.net
Import OBJ and glTF files into SAMSON
Просмотров 989 месяцев назад
To enrich your images and animations in SAMSON, you can import OBJ and glTF files. You can then place them where you want and hit F9 to render using Cycles. You can also adjust their materials using the Inspector. Link to the SAMSON document: www.samson-connect.net/app/main?key=document&uuid=1eaf3bc1-511c-4965-825e-9b74c5c2b28c Sources for the objects in the video: - red teapot: cmzw sketchfab....
Snapping molecules in SAMSON
Просмотров 889 месяцев назад
To position molecules precisely, you can use translational and angular snapping. You can also choose any atom as rotation center. Get SAMSON at www.samson-connect.net
Generating symmetric replicas in SAMSON
Просмотров 1079 месяцев назад
To quickly add symmetric replicas in SAMSON, use the Symmetry Mate Editor. This free extension lets you interactively generate symmetry mates of a protein based on the crystallographic information from a PDB file. Get SAMSON at www.samson-connect.net
Making SAMSON AI *do* something
Просмотров 1259 месяцев назад
To make your SAMSON AI do something, begin your prompt with /do. And if you prefer to speak, just say do (turn the sound on for the video example below). This is an example of retrieval-augmented agency (RAA), where knowledge about SAMSON and its extensions allows the GPT-4-based SAMSON AI to act on user prompts. This is still very preliminary, but should regularly improve - thanks to SAMSON's ...
Creating a molecular assembly animation
Просмотров 1019 месяцев назад
To quickly create an animation of two or more molecules assembling, select them and double-click the Assemble button in the Animator (Ctrl / Cmd 7). This will automatically determine the initial and final position of each molecule, and add the assemble animation to the active presentation. You can then change the begin and end keyframes in the animator, and change the amplitude and easing curve...
Editing side-chain conformations using the Rotamers editor
Просмотров 449 месяцев назад
Select a residue, then select a rotamer from the table. Potential clashes will be automatically detected and shown. Get this free extension at www.samson-connect.net/element/7cc74ea8-c24b-78fa-49a6-a75562902a12.html Get SAMSON at www.samson-connect.net
Carbon nanotube fabric
Просмотров 4910 месяцев назад
Use SAMSON's Python API to create complex structures. Visit documentation.samson-connect.net/scripting/latest/docs/examples/Example_CreationOfCNTFabric.html for the full tutorial. Get SAMSON at www.samson-connect.net
Quick molecular geometry optimization using FIRE
Просмотров 19210 месяцев назад
To perform very fast geometry optimization, use the FIRE minimizer. When this carbon nanotube is sliced, it quickly relaxes to a mostly flat graphene sheet. Get SAMSON at www.samson-connect.net
Creating a nanopore from a graphene sheet and a nanotube
Просмотров 15510 месяцев назад
To build a carbon nanopore, draw a graphene sheet and a nanotube, remove some atoms and use the Brenner reactive force field during interactive minimization to meld them. The Brenner potential (Brenner et al., Journal of Physics: Condensed Matter, Volume 14, Number 4) is a many-body potential-energy expression with a chemical bond description, which produces realistic geometries for hydrocarbon...
Triggering GUI commands using Python
Просмотров 40210 месяцев назад
To trigger any GUI command in Python, call the SAMSON.runCommand function on the command name. Use this directly in the Python console (Ctrl / Cmd 8), or in Python scripts to automate tasks using the Code Editor (Ctrl / Cmd 9). Get SAMSON at www.samson-connect.net
Using appearance presets
Просмотров 6110 месяцев назад
To quickly change the look of objects when rendering with Cycles in SAMSON (Trace mode, shortcut F9), first apply a material, then apply an appearance preset in the Inspector. Get SAMSON at www.samson-connect.net
Building molecules with atoms and fragments
Просмотров 10210 месяцев назад
Building molecules with atoms and fragments
How to create molecular animations | SAMSON 2021
Просмотров 2,6 тыс.3 года назад
How to create molecular animations | SAMSON 2021
Protein-ligand docking with the FITTED Suite and the SAMSON molecular design platform
Просмотров 1,2 тыс.3 года назад
Protein-ligand docking with the FITTED Suite and the SAMSON molecular design platform
Customize your SAMSON with SAMSON Elements
Просмотров 984 года назад
Customize your SAMSON with SAMSON Elements
Sharing Documents with the SAMSON Assets
Просмотров 494 года назад
Sharing Documents with the SAMSON Assets
Fragment replacement using the SMILES Manager SAMSON Element
Просмотров 2374 года назад
Fragment replacement using the SMILES Manager SAMSON Element
Interactive molecular dynamics in virtual reality with SAMSON
Просмотров 1 тыс.4 года назад
Interactive molecular dynamics in virtual reality with SAMSON
Welding two carbon nanotubes in virtual reality with SAMSON
Просмотров 2824 года назад
Welding two carbon nanotubes in virtual reality with SAMSON
Editing a graphene sheet in virtual reality with SAMSON
Просмотров 3174 года назад
Editing a graphene sheet in virtual reality with SAMSON
Editing carbon nanotubes in virtual reality with SAMSON
Просмотров 2864 года назад
Editing carbon nanotubes in virtual reality with SAMSON
Molecular Virtual Reality with SAMSON
Просмотров 4444 года назад
Molecular Virtual Reality with SAMSON
SAMSON Elements - Bi-directional Ramachandran Plots
Просмотров 8177 лет назад
SAMSON Elements - Bi-directional Ramachandran Plots
SAMSON SDK Tutorials - Developing Apps - Atom Shaker 4 - Improving the interface
Просмотров 2028 лет назад
SAMSON SDK Tutorials - Developing Apps - Atom Shaker 4 - Improving the interface