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<p style="margin-top:0;margin-bottom:0">Hi Vladan</p>
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<p style="margin-top:0;margin-bottom:0">I have removed overlapping particles but it didn't change the FSC behaviour.</p>
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<p style="margin-top:0;margin-bottom:0">Steinar</p>
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<div id="divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" style="font-size:11pt" color="#000000"><b>From:</b> 3dem <3dem-bounces@ncmir.ucsd.edu> on behalf of Vladan Lucic <vladan@biochem.mpg.de><br>
<b>Sent:</b> 02 November 2018 17:21:04<br>
<b>To:</b> 3dem@ncmir.ucsd.edu<br>
<b>Subject:</b> Re: [3dem] Add random noise to reconstruction</font>
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<p>Hi Stelnar,</p>
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<p>Perhaps you have double (overlapping) particles, as a result of double picking or translations during refinement for example. A quick way to check for this is to make particle half-sets from different tomograms (split tomograms in two groups and make each
half particle set from one group). In this way, double particles will always be in the same particle half-set. If the FSC between these halves goes to 0, it's double particles.</p>
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<p>Just a guess, hope it helps</p>
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<p>Best,</p>
<p>Vladan<br>
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<div class="x_moz-cite-prefix">On 11/2/18 5:44 PM, Steinar Halldorsson wrote:<br>
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<p style="margin-top:0; margin-bottom:0">Hi all</p>
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<p style="margin-top:0; margin-bottom:0">I have something which looks like an artefact in my FSC curves from tomography data calculated in Relion. Basically the curves hover around 0.1 instead of reaching 0... And this is not coming from my mask btw. There
is quite a lot of information (protein) outside of the mask, you can see clear but slightly smeary density from neighbours in the final maps, and I wonder if this is causing these correlations? One way I have thought to test this is to take my two half maps,
somehow add random noise to parts outside of my region of interest and then recalculate my FSC. </p>
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Firstly, does this sound like a reasonable thing to try?<br>
Secondly, does anyone have a suggestion of how to actually do the random noise addition outside of my region of interest?<br>
<br>
Cheers,</p>
<p style="margin-top:0; margin-bottom:0">Steinar</p>
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<p style="margin-top:0; margin-bottom:0">---</p>
<p style="margin-top:0; margin-bottom:0">Steinar Halldorsson</p>
<p style="margin-top:0; margin-bottom:0">Postdoctorate Fellow</p>
<p style="margin-top:0; margin-bottom:0">Rosenthal lab</p>
<p style="margin-top:0; margin-bottom:0">The Francis Crick Institute<br>
London, United Kingdom</p>
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