On 2011-11-26 18:55, mohammad agha wrote:
Dear Prof.
I have some problems about g_clustsize program and I didn't find my
answer in mailing list. Please help me.
I don't know what is the base of selection for -cut option?
In my system after doing g_clustsize, when I see nclust.xvg file, it
looks like all the atoms in the system were used to find clusters.
that's correct, g_clustsize -h explains it.
@ title "Number of clusters"
@ xaxis label "Time (ps)"
@ yaxis label "N"
@TYPE xy
0.000000e+00 413
1.500000e+02 362
3.000000e+02 348
4.500000e+02 304
6.000000e+02 274
7.500000e+02 255
9.000000e+02 243
1.050000e+03 233
1.200000e+03 218
1.350000e+03 211
1.500000e+03 199
1.650000e+03 190
1.800000e+03 192
1.950000e+03 179
2.100000e+03 172
2.250000e+03 170
.....
.....
.....
5.992500e+05 9
5.994000e+05 10
5.995500e+05 9
5.997000e+05 9
5.998500e+05 9
6.000000e+05 9
My system consist of 500 monmer.
Please help me.
Best Regards
SARA
--
David van der Spoel, Ph.D., Professor of Biology
Dept. of Cell & Molec. Biol., Uppsala University.
Box 596, 75124 Uppsala, Sweden. Phone: +46184714205.
sp...@xray.bmc.uu.se http://folding.bmc.uu.se
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