<html>
<head>
<meta http-equiv="Content-Type" content="text/html;
charset=windows-1252">
</head>
<body text="#000000" bgcolor="#FFFFFF">
<p>Dear all,</p>
<br>
<span id="p212">Thank you all very much for your nice suggestions.</span><br>
<br>
<span id="p138">I <span id="204-205">tried</span> <span id="153">to
</span><span id="153-156-206">sort</span> <span id="148">it</span>
with the motion <span id="159">estimation</span> as suggested <span
id="143" class="s-rg">mazdak</span> <span id="144" class="s-rg">radjainia</span>
and <span id="149">it</span> <span id="145" class="s-ve">work</span>
quite well in my <span id="192-193">case</span> so I'll <span
id="155-207-208">go</span><span id="155"> for</span> this <span
id="194-195">solution</span>.</span><br>
<br>
<span id="p139">Another sugestion <span id="211-212">was</span> to
<span id="150-209-210">do it</span> in <span id="147"
class="s-rg">scipion</span> and <span id="151">it</span> looks
<span id="157">really</span> convenient, as <span id="198-199">well</span>
as the <span id="200-201">FOCUS software</span>.</span><br>
<br>
<span id="p140"><span id="158">Thank you</span> very much for all
your <span id="202-203">answers</span>.</span>
<p>Cheers,</p>
<p>Julien<br>
</p>
<br>
<div class="moz-cite-prefix">Le 23/11/2018 à 11:57, Henning
Stahlberg a écrit :<br>
</div>
<blockquote type="cite"
cite="mid:F22BBDDD-D1E5-47C3-9798-CB631A7C06DF@unibas.ch">
<meta http-equiv="Content-Type" content="text/html;
charset=windows-1252">
Dear Julien,
<div class=""><br class="">
</div>
<div class="">You could try FOCUS for this, see</div>
<div class=""><a
href="https://www.youtube.com/watch?v=fKees50shgY&list=PLteVxMX-rlQspNczCoWrLyamWHgrhTMGv&index=6"
class="" moz-do-not-send="true">https://www.youtube.com/watch?v=fKees50shgY&list=PLteVxMX-rlQspNczCoWrLyamWHgrhTMGv&index=6</a></div>
<div class=""><br class="">
</div>
<div class="">Henning.</div>
<div class=""><br class="">
<div class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; word-spacing: 0px;
-webkit-text-stroke-width: 0px; word-wrap: break-word;
-webkit-nbsp-mode: space; -webkit-line-break:
after-white-space;" class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; word-spacing: 0px;
-webkit-text-stroke-width: 0px; word-wrap: break-word;
-webkit-nbsp-mode: space; -webkit-line-break:
after-white-space;" class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal;
text-align: start; text-indent: 0px; text-transform:
none; white-space: normal; word-spacing: 0px;
-webkit-text-stroke-width: 0px; word-wrap: break-word;
-webkit-nbsp-mode: space; -webkit-line-break:
after-white-space;" class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal;
text-align: start; text-indent: 0px; text-transform:
none; white-space: normal; word-spacing: 0px;
-webkit-text-stroke-width: 0px; word-wrap: break-word;
-webkit-nbsp-mode: space; -webkit-line-break:
after-white-space;" class="">
<div style="word-wrap: break-word; -webkit-nbsp-mode:
space; -webkit-line-break: after-white-space;"
class="">
<div style="color: rgb(0, 0, 0); font-variant-caps:
normal; letter-spacing: normal; text-align: start;
text-indent: 0px; text-transform: none;
white-space: normal; word-spacing: 0px;
-webkit-text-stroke-width: 0px;">
<div class="" style="orphans: 2; widows: 2;">
<div class=""><span class="Apple-style-span"
style="color: rgb(102, 102, 153); font-size:
11px;"><font class="" face="Arial">Henning
Stahlberg, PhD</font></span></div>
<div class=""><font class="Apple-style-span"
style="font-size: 11px;" face="Arial"
color="#666699">Prof. for Structural
Biology, C-CINA, Biozentrum, University of
Basel</font></div>
<div class=""><font class="Apple-style-span"
style="font-size: 11px;" face="Arial"
color="#666699">Mattenstrasse 26 | D-BSSE |
WRO-1058 | CH-4058 Basel | Switzerland</font></div>
<div class=""><font class="Apple-style-span"
style="font-size: 11px;" face="Arial"
color="#666699"><a href="http://c-cina.org"
class="" moz-do-not-send="true">http://c-cina.org</a> |
Tel. +41-61-387 32 62</font></div>
<div class=""><font class="Apple-style-span"
style="font-size: 11px;" face="Arial"
color="#666699"><br class="">
</font></div>
</div>
</div>
</div>
</div>
<br class="Apple-interchange-newline">
</div>
<br class="Apple-interchange-newline">
</div>
<br class="Apple-interchange-newline">
<div dir="ltr">Dear Julien,
<div><br>
</div>
<div>You can use Scipion to do that. </div>
<div>When running movie alignment (motioncor2, unblur,
xmipp3, etc) you can active an option</div>
<div>to generate a thumbnail and then after CTF estimation
(gctf, ctffind4, etc) you will have a GUI (see</div>
<div>figure below) where you can sort by any column
(estimated resoltion, quality fit, defocus, etc)</div>
<div>and select/deselect micrographs and create a new
subset. You can also change to a view to see</div>
<div>a gallery of all thumbnails (real space micrograph)
or a gallery of all PSDs images, this also helps</div>
<div>to screen the micrographs quickly in some cases. If
you don't want to continue processing</div>
<div>inside Scipion, you could easily export micrographs +
CTF (protocol 'relion - export ctf') and then</div>
<div>proceed in Relion.</div>
<div><br>
</div>
<div>Please let me know if you want to give it a try and
have any further questions.</div>
<div><br>
</div>
<div>Kind regards,</div>
<div>Jose Miguel</div>
<div><br>
</div>
<div><br>
<div><br>
</div>
<div>
<div><img
src="cid:part3.62AB0C32.795807ED@etu.umontpellier.fr"
alt="image.png" height="371" width="563"><br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</blockquote>
<br>
<br>
<br>
<blockquote type="cite"
cite="mid:F22BBDDD-D1E5-47C3-9798-CB631A7C06DF@unibas.ch">
<div class="">
<div class="">
<div style="color: rgb(0, 0, 0); letter-spacing: normal;
text-align: start; text-indent: 0px; text-transform: none;
white-space: normal; word-spacing: 0px;
-webkit-text-stroke-width: 0px; word-wrap: break-word;
-webkit-nbsp-mode: space; -webkit-line-break:
after-white-space;" class="">
<div dir="ltr">
<div>
<div>
<div><br>
</div>
</div>
</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr">On Thu, Nov 22, 2018 at 6:18 PM Julien Bous
<<a href="mailto:julien.bous@etu.umontpellier.fr">julien.bous@etu.umontpellier.fr</a>>
wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0 0 0
.8ex;border-left:1px #ccc solid;padding-left:1ex">Dear
All,<br>
<br>
I wish to realise a sorting of my realigned micrographs
in Relion3, in <br>
order to get rid of broken ice area. I wanted to do it
in the subset <br>
selection mode but I was not able to set a lowpass
filter in this mode <br>
and it was challenging to asses the micrographs quality.
I thougt to do <br>
it in the manual picking mode or manually, with eman ,
but in this way I <br>
can just display the micrographs one by one and it'll be
very time <br>
consuming. Therefore if anyone knows how to realise
this task <br>
effectively I'll be glad to know your opinion.<br>
<br>
Cheers,<br>
<br>
Julien</blockquote>
</div>
</div>
<br class="Apple-interchange-newline">
<br class="Apple-interchange-newline">
</div>
<br class="">
<div>
<blockquote type="cite" class="">
<div class="">On 22 Nov 2018, at 18:18, Julien Bous <<a
href="mailto:julien.bous@etu.umontpellier.fr" class=""
moz-do-not-send="true">julien.bous@etu.umontpellier.fr</a>>
wrote:</div>
<br class="Apple-interchange-newline">
<div class="">
<div class="">Dear All,<br class="">
<br class="">
I wish to realise a sorting of my realigned micrographs
in Relion3, in order to get rid of broken ice area. I
wanted to do it in the subset selection mode but I was
not able to set a lowpass filter in this mode and it was
challenging to asses the micrographs quality. I thougt
to do it in the manual picking mode or manually, with
eman , but in this way I can just display the
micrographs one by one and it'll be very time consuming.
Therefore if anyone knows how to realise this task
effectively I'll be glad to know your opinion.<br
class="">
<br class="">
Cheers,<br class="">
<br class="">
Julien<br class="">
<br class="">
_______________________________________________<br
class="">
3dem mailing list<br class="">
<a href="mailto:3dem@ncmir.ucsd.edu" class=""
moz-do-not-send="true">3dem@ncmir.ucsd.edu</a><br
class="">
<a class="moz-txt-link-freetext" href="https://mail.ncmir.ucsd.edu/mailman/listinfo/3dem">https://mail.ncmir.ucsd.edu/mailman/listinfo/3dem</a><br
class="">
</div>
</div>
</blockquote>
</div>
<br class="">
</div>
</blockquote>
<br>
</body>
</html>