For the advanced use we recommend to go through Getting Started With Matlab ( ).ĭynamo has a help center that may be called by typing We find it useful to understand the basics of Matlab: variables, conditions, loops, functions, plots. This tutorial focuses on the basic GUI functionality however the real power of Dynamo lays in its flexibility supported by Matlab scripting. Type > dynamo and a command window will appear. Make a new directory for your project (> mkdir dtutorial) and go there Start Matlab in your system (can take some time), an inside the Matlab terminal, typeĭynamo is now ready to use. Alternatively you can run this tutorial on in multicore mode without GPU, for this you will need a Matlab version 2014b or higher and a Parallel Computing Toolbox, or a standalone installation.
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If you want to use GPU computing for this walkthrough, (installation in abstract 4 of README), please make sure you have CUDA5.0 drivers installed in your system. (for Linux and Mac systems or use a visual tool as 7-zip under Windows)įollow the instructions in the file README_dynamo_installation.txt to finish the installation depending on your system. tar file to your desired installation directory and untar it: However for most of the tasks we find it satisfying to have a multi-CPU desktop with several Nvidia Graphical Processors (GPUs) and Matlab.ĭownload Dynamo and copy the. Dynamo has a standalone to be run in high performance computational systems (CPU, GPU and hybrid clusters). This document describes the basics including particle picking, initial model generation, alignment, averaging and classification or particles. 4.2 Classification with PCA and k-meansĭynamo is a Matlab based set of scripts and GUIs designed to perform subtomogram averaging from cryo electron tomograms.
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