Getting started

The best way to learn Dynamoon your own is to follow the materials in one of our 2 day-workshops PSI Workshop 2023

Starters guide

Concerning the task of subtomogram averaging, you can get a plunge-freeze immersion in Dynamo for from scratch, by following the starters guide. This is a short hands-on complete walkthrough through the main functionalities in Dynamo: viewing and organizing tomograms, extracting particles, aligning, averaging and classifying subtomograms, and avoiding overfitting.

Getting help

Dynamo offers several ways of getting help on specific subjects.... and of course, you can always [contact our forum in Google Groups]

Set of walkthroughs

The following table lists a set of suggested walkthroughs for different topics on Cryo-ET data processing using Dynamo. The full list of walkthroughs can be accessed through its page.

Set available walkthroughs sorted by topic

Topic	Walkthrough
General	Starters guide
	Advanced starters guide
	Tips for management of tomographic data sets
	Getting a Structure from Multiple Tomograms of HIV Capsids (walkthrough)
	High resolution walkthrough with HIV1
Models	Dipole set models
	Walkthrough on filament models
	Walkthrough on vesicle models
	Walkthrough on membrane models
PCA	Walkthrough on PCA through the command line
STA and MRA	Walkthrough basic multireference
	Walkthrough on adaptive bandpass filtering
Tilt series alignment	Walkthrough on manual marker clicking
	Walkthrough on GUI based tilt series alignment
	Walkthrough on command line based tilt series alignment
	Walkthrough on localized reconstruction
Template matching	Walkthrough for template matching
	Walkthrough for GUI-based template matching
	Walkthrough for model-aware template matching
	Programmatic GUI customization for template matching
Visualization	Walkthrough on placement of averages on table positions
	Walkthrough on creation of 3d scenes
	Walkthrough on hexagonal lattice coherence through neighborhood analysis
Others	Integration with Warp and M