No, I don't think so because I did an .eps file (with xpm2ps) that indicates the Time(ps) in x-axis and Hydrogen Bond Index in y-axis.<br>This is the way I'm reading my matrix.<br><br>Carla<br><br><div class="gmail_quote">
On Fri, Oct 15, 2010 at 12:09 PM, Erik Marklund <span dir="ltr"><<a href="mailto:erikm@xray.bmc.uu.se">erikm@xray.bmc.uu.se</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
Carla Jamous skrev 2010-10-15 12.05:<div><div></div><div class="h5"><br>
<blockquote class="gmail_quote" style="margin: 0pt 0pt 0pt 0.8ex; border-left: 1px solid rgb(204, 204, 204); padding-left: 1ex;">
Hi everyone,<br>
<br>
please I need some help on g_hbond.<br>
<br>
I concatenated 3 trajectories. I ran g_hbond on the concatenated trajectory. I got the result of h_bonds.<br>
Then I wanted to run g_hbond on each of my 3 trajectories. Here, I get a different result, it means: if I take the first 10ps of my concatenated trajectory and I run g_hbond on these 10ps. I get some H-bonds eg. Gly(N)...H(gly)...O<br>
but this same H-bond doesn't appear in the first 10ps of my concatenated trajectory's HBmap.<br>
<br>
Please does anyone have an idea where I might have done a mistake?<br>
<br>
Thank you,<br>
Carla<br>
<br>
</blockquote></div></div>
The first thing to check is if you're reading the matrix upside down. Sounds trivial, but it's an eaasy mistake to do.<br>
<br>
Cheers,<br>
<br>
-- <br>
-----------------------------------------------<br>
Erik Marklund, PhD student<br>
Dept. of Cell and Molecular Biology, Uppsala University.<br>
Husargatan 3, Box 596, 75124 Uppsala, Sweden<br>
phone: +46 18 471 4537 fax: +46 18 511 755<br>
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