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<DIV>Hi,</DIV>
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<DIV>Is it possible to use g_cluster to cluster NAMD2 trajectories?</DIV>
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<DIV>I am trying to use g_cluster to cluster my NAMD2 deriven trajectories. First, I converted my .dcd trajectory into .pdb format. Then, tried this: </DIV>
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<DIV>>g_cluster -f mypdb.pdb -cl clusters.pdb</DIV>
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<DIV>and it did not work. Later, I converted my .pdb to .xtc and tried: </DIV>
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<DIV>>g_cluster -f myxtc.xtc -cl clusters.pdb</DIV>
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<DIV>does not work either. Should I include a Gromacs MD run specific .tpr topology file as well, though it is mentioned as "optional input"?</DIV>
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<DIV>I hope you can help me out,</DIV>
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<DIV>Best<BR> </DIV>Osman N. Yogurtcu<BR>
<DIV>Center for Computational Biology and Bioinformatics <BR>Research Assistant <BR>Koc University </DIV></div></body></html>