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Example - oxDNA.org

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Next, open the "Submit as guest" link in the sidebar in a new tab to go to the job submit page. On that page you will see a button to upload files. Click that button, navigate to where you saved 23.dat and 23.top, select both (ctrl+click) and click "Open". Some browsers have trouble with opening two files like that, if this doesn't work, you can also select the two files and drag and drop them anywhere on the page EXCEPT the oxView window. Next, make some modifications to the default parameters so the example finishes quickly: Once the job status has changed to "Completed", it is ready for analysis. Click the job name in the leftmost column to go to the analysis page. On the analysis page you will find a series of options for built-in analysis options. As an example, try clicking on "Compute mean", wait for the status to change to "Completed" and then click "View means+deviations" to see the mean structure and per-nucleotide RMSF during the simulation. Distance is another good example,

Example - oxDNA.org Example of use Thank you for your interest in oxdna.org! The following tutorial will walk you through an example of using the server to simulate a DNA origami. Example files DNA/RNA structures in an oxDNA simulation are defined by a "configuration" and a "topology". Download these two files to begin: Configuration Topology These files describe a wireframe DNA origami from this paper in oxDNA format. Submitting the job Next, open the "Submit as guest" link in the sidebar in a new tab to go to the job submit page. On that page you will see a button to upload files. Click that

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