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Hi,<br><br>Well, there is axial, radial and angular (angle of rotation around the axial direction).<br>Averaging happens over the radial coordinate.<br><br>Berk<br><br><hr id="stopSpelling">Date: Mon, 11 May 2009 18:27:07 +0200<br>From: mariagoranovic@gmail.com<br>To: gmx-users@gromacs.org<br>Subject: [gmx-users] where is the normalization direction in radial axial g_densmap plots?<br><br>I made a radial-axial density plot using g_densmap. What one gets out is a 3-D number density as a function of radial and axial distance from the defined axis. So which is the third direction, and how is it averaged out? Sorry if this is a very elementary question<br>
<br>g_densmap -f protein.xtc -s protein.tpr -n proteinndx -o protein.xpm -b 10000 -e 30000 -bin 0.01 -amax 2 -rmax 2 -dmax 40<br><br><br clear="all"><br>-- <br>Maria G.<br>Technical University of Denmark<br>Copenhagen<br><br /><hr />Express yourself instantly with MSN Messenger! <a href='http://clk.atdmt.com/AVE/go/onm00200471ave/direct/01/' target='_new'>MSN Messenger</a></body>
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