Workshop exercises

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General tools

Average

Create an average given a table and a data folder, programmatically.

Tomography

Fast annotations on a tomogram

Sometimes, for small tasks, accessing the tomograms through the Catalogue can be tedious. It is thus convenient to become familiar with alternatives.

Inspect a tomogram, mark several 3D positions and get them as a text file with three columns (x,y,z).


Cropping a data folder with a different particle size

Situation: You have a data folder containing particles and a crop.tbl (and the usual auxiliary files produced when extracting particles through the catalogue). The table indicates that several tomograms where used during the extraction. You want to reproduce the data folder with bigger particles, but don't remember how you used the Catalogue to generate the data folder (maybe some weeks ago).

Task: Recrop the particles with a different particle sidelength using dtcrop and without using the catalogue.

Importing annotations for a single tomogram

Importing annotations for several catalogued tomograms

Imagine the ame situation as in the previous exercise, but for multiple tomograms: You have several tomograms and for each one you have a text file with particle coordinates. This time you want to keep a clean track of everything you do, so you plan to use the Catalogue. To this end, you have already put your volumes inside a catalogue.

Task: How do you convert a text file into a Dynamo model? How do you assign programmatically to each volume in a catalogue a different model?

Subboxing from tomograms