Difference between revisions of "Video tutorials"
| (2 intermediate revisions by the same user not shown) | |||
| Line 11: | Line 11: | ||
==== Isolated particles ==== | ==== Isolated particles ==== | ||
| − | In this [https://youtu.be/VPIdxpxNqWw | + | In this [https://youtu.be/VPIdxpxNqWw video] we use {{t|dtmview}} to show how the concurrent viewers can be used to pick isolated particles. |
| − | |||
The tomogram represents a mixture of PRD1 bacteriophages in a buffer. | The tomogram represents a mixture of PRD1 bacteriophages in a buffer. | ||
| Line 18: | Line 17: | ||
==== Arbitrary membranes ==== | ==== Arbitrary membranes ==== | ||
| − | In | + | In [https://youtu.be/2V1pD0Gr8L8 this video] we use {{t|dtmslice}} and the {{t|montage viewer}} to define points in a membrane in a semiautomatic manner. |
Tomogram is courtesy of Morgan Beeby, in Imperial College (London). | Tomogram is courtesy of Morgan Beeby, in Imperial College (London). | ||
==== Filaments ==== | ==== Filaments ==== | ||
| − | In | + | In [https://youtu.be/hsZ-9xAYufIt this video], {{t|dtmslice}} is used to pick microtubules in a tomogram. We use {{t|dpreview}} to inspect the tomogram and select an area that is then read into memory. |
| + | This region is then displayed in {{t|dtmslice}}. With keys [1] and [2] we can define extremal points of a filament, ask Dynamo to define local views that are orthogonal to the path between points [1] and [2]. In these local views the user can click on the center of each section of the filament, defining a coarse approximation to the path. | ||
The tomogram is courtesy of Takashi Ishikawa, in PSI-Villingen (Switzerland). | The tomogram is courtesy of Takashi Ishikawa, in PSI-Villingen (Switzerland). | ||
Latest revision as of 09:24, 1 June 2016
Contents
Starting Guide
This [youtube link] shows an introduction to setting up alignment projects in Dynamo. It works on the old dynamo_project_manager GUI.
Particle picking
Catalogues
Models
Isolated particles
In this video we use dtmview to show how the concurrent viewers can be used to pick isolated particles. The tomogram represents a mixture of PRD1 bacteriophages in a buffer.
Tomogram is courtesy of the Abrescia Lab, in CIC-Biogune (Bilbao).
Arbitrary membranes
In this video we use dtmslice and the montage viewer to define points in a membrane in a semiautomatic manner. Tomogram is courtesy of Morgan Beeby, in Imperial College (London).
Filaments
In this video, dtmslice is used to pick microtubules in a tomogram. We use dpreview to inspect the tomogram and select an area that is then read into memory. This region is then displayed in dtmslice. With keys [1] and [2] we can define extremal points of a filament, ask Dynamo to define local views that are orthogonal to the path between points [1] and [2]. In these local views the user can click on the center of each section of the filament, defining a coarse approximation to the path. The tomogram is courtesy of Takashi Ishikawa, in PSI-Villingen (Switzerland).
