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<pre>You first need to obtain an .xtc in which the micelle is entirely within the unit cell in every frame:</pre>
<pre><a href="http://www.gromacs.org/Documentation/How-tos/Micelle_Clustering" target="_blank">http://www.gromacs.org/Documentation/How-tos/Micelle_Clustering</a></pre>
<pre>You can then use g_gyrate to get the radius of gyration or g_rdf to get the radial </pre>
<pre>distribution function from the micelle COM or some other tool compute the diameter (but note</pre>
<pre>that there are many ways to define the "diameter" of an object with a rough surface).</pre>
<pre>Chris.</pre>
<pre>-- original message --</pre>
<pre>I am working with an emulsion water/n-dodecane in a box of 29nm. </pre>
<pre>I wish to know how I can to get the diameter of the micelle in the frame, </pre>
<pre>then I need to measuring the average diameter of the micelle in each frame.
Thanks for your help!!</pre>
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