<html><head><meta http-equiv="Content-Type" content="text/html charset=iso-8859-1"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space; ">Hi Edgar,<div><br></div><div>Ok, I thought its something like that. Definitely use more beads and smaller diameter.</div><div><br></div><div>All the best</div><div><br></div><div>PAvel</div><div><br><div apple-content-edited="true">
--------------------------------------------------------------------------------------------------<br>Pavel Tomancak, Ph.D.<br><br>Research Group Leader<br>Max Planck Institute of Molecular Cell Biology and Genetics in Dresden<br>Pfotenhauerstr. 108<br>D-01307 Dresden<span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span>Tel.: +49 351 210 2670<br>Germany<span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span><span class="Apple-tab-span" style="white-space: pre; "> </span>Fax: +49 351 210 2020<br><br><a href="mailto:tomancak@mpi-cbg.de">tomancak@mpi-cbg.de</a><br>http://www.mpi-cbg.de/research/research-groups/pavel-tomancak.html<br>twitter: @PavelTomancak<br>--------------------------------------------------------------------------------------------------<br><br>
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<br><div><div>On Oct 25, 2013, at 9:35 AM, <a href="mailto:edgar.escobar.nieto@ipt.fraunhofer.de">edgar.escobar.nieto@ipt.fraunhofer.de</a> wrote:</div><br class="Apple-interchange-newline"><blockquote type="cite"><font face="Default Sans Serif,Verdana,Arial,Helvetica,sans-serif" size="2">
<span>Dear Pavel,<br><br>The data is a tiling across a large field of view, for the stitching I used the Grid/Collection Stitching plugin from<br>
Fiji, it works perfectly. So I will buy the 0.5 um beads that are recommended in the OpenSPIM wiki and have a greater concentration. This image was only a test with the beads that we have already available. Thanks a lot for your update.<br>
<br>Kind regards,<br>Edgar<br><br><br><table border="0" cellpadding="0" cellspacing="0" width="457,5">
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<br><br><font color="#990099">-----Pavel Tomancak <<a href="mailto:tomancak@mpi-cbg.de">tomancak@mpi-cbg.de</a>> schrieb: -----</font>
<div style="padding-left:5px;"><div style="padding-right:0px;padding-left:5px;border-left:solid black 2px;">
An: <a href="mailto:edgar.escobar.nieto@ipt.fraunhofer.de">edgar.escobar.nieto@ipt.fraunhofer.de</a><br>Von: Pavel Tomancak <<a href="mailto:tomancak@mpi-cbg.de">tomancak@mpi-cbg.de</a>><br>
Datum: 24.10.2013 20:04<br>Kopie: "<a href="mailto:openspim@openspim.org">openspim@openspim.org</a>" <<a href="mailto:openspim@openspim.org">openspim@openspim.org</a>><br>
Betreff: Re: [OpenSPIM] Zebra fish SPIM imaging<br><br><!--Notes ACF<meta http-equiv="Content-Type" content="text/html charset=iso-8859-1">-->Dear Edgar,<div>
<br></div><div>I am not sure I understand what you did. How did you stitch them together? Is this multi-view (angle) data or a tiling across a large field of view?</div>
<div><br></div><div>In any case you most likely do not have enough beads in there. I would say you need ten times more.</div>
<div><br></div><div>Your beads are gigantic, 2um, we use much smaller beads typically.</div>
<div><br></div><div>Let me know more details and I am sure we can work it out.</div>
<div><br></div><div>All the best</div><div><br></div><div>PAvel</div><div>
<br></div><div apple-content-edited="true">--------------------------------------------------------------------------------------------------<br>
Pavel Tomancak, Ph.D.<br><br>Research Group Leader<br>Max Planck Institute of Molecular Cell Biology and Genetics in Dresden<br>
Pfotenhauerstr. 108<br>D-01307 Dresden<span class="Apple-tab-span" style="white-space: pre; ">
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<br></div><br><div><div>On Oct 24, 2013, at 5:38 PM, <a href="mailto:edgar.escobar.nieto@ipt.fraunhofer.de">
edgar.escobar.nieto@ipt.fraunhofer.de</a> wrote:</div><br class="Apple-interchange-newline">
<blockquote type="cite"><font face="Default Sans Serif,Verdana,Arial,Helvetica,sans-serif" size="2">
<font face="Default Sans Serif,Verdana,Arial,Helvetica,sans-serif" size="2">
<span>Hi dear All,<br><br>I have made some imaging of a zebra fish that expresses GFP fluorescence with a heat shock, I have gotten 25 stacks (5x5) and stitched it together.<br>
2 µm green beads were embedded to the agarose and I think that the beads signal is good in contrast to the signal of the fish. <br>
<br>I would like to know if with the concentration of beads that could be appreciated in the Z projection and the video of the scanning of the resulting stack<br>
is enough to perform multiview fusion.<br><br><a href="https://www.dropbox.com/s/sooicfk68iszq3m/Fused_linear%20blending_18fps.avi">
https://www.dropbox.com/s/sooicfk68iszq3m/Fused_linear%20blending_18fps.avi</a>
<br><a href="https://www.dropbox.com/s/q98akotaynltbvc/Fused_linear%20blending_z%20projection.tif">https://www.dropbox.com/s/q98akotaynltbvc/Fused_linear%20blending_z%20projection.tif</a><br>
<br>Thanks in advance for your comments.<br><br>Kind regards,<br>Edgar<br>
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<br>Fraunhofer-Institut für Produktionstechnologie IPT <br>Edgar Escobar Nieto <br>
<br><br> <br> <br>Steinbachstraße 17 <br>52074 Aachen <br><br>edgar.escobar.nieto@ipt.fraunhofer.de </font>
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