Walkthrough for lattices on vesicles
This walkthrough shows the approach to process proteins that cover spheroidal vesicles following (approximately) a structured lattice. For demonstration, we use a highly binned tomogram with several viral capsides.
The data has been made available by Florian Schur . This single tomogram is part of the data set used for the paper:
Getting the data
You can download the data through:
Viewing the data
The tomogram is severely binned, so it will probably fit in memory without major problems. We can just use our typical tool to quick check a tomogram.
We are interested in cropping the particles between the two layers of each one of the viruses.
In our approach, we will first use a single model to manually input the approximate centers and radiuses of all the viruses. We will use the model type dipoleSet. This model allows to describe each annotated virus as a dipole: we will mark the (approximate) center of the virus as the center property of a dipole. The radius of the virus will be described by an annotation of the north property of the dipole.
When the model is active, we use the key c to mark the center of the current dipole, and n to mark the north.
[[|thumb|center|600px| Selecting a dipole: click on C for the center, then N for the north]]
Further clicks on c or n will just move the