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<p>Hi Elaine,</p>
<p><br>
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<p>Thanks for your reply. Yes, I have <span style="font-family:Calibri,Arial,Helvetica,sans-serif,EmojiFont,'Apple Color Emoji','Segoe UI Emoji',NotoColorEmoji,'Segoe UI Symbol','Android Emoji',EmojiSymbols; font-size:16px">
ardently </span>gone through <span><a href="http://www.cgl.ucsf.edu/pipermail/chimera-users/2016-June/012366.html" class="x_OWAAutoLink" id="LPlnk632802">http://www.cgl.ucsf.edu/pipermail/chimera-users/2016-June/012366.html</a></span><span style="font-size:12pt"> but
ended up being confused as it seems no conclusion had been reached there, or I failed altogether to get the take home message </span>from<span style="font-size:12pt"> the discussion</span><span style="font-size:12pt">.</span></p>
<p><span style="font-size:12pt"><br>
</span></p>
<p><span style="font-size:12pt">Also, the "LocalFSC" thingy is not what I am looking for...</span></p>
<p><span style="font-size:12pt"><br>
</span></p>
<p><span style="font-size:12pt">But nevermind, lets wait for our "map expert" to be back in action and meanwhile I am waiting for others to bring in some </span>appropriate<span style="font-size:12pt"> answers.</span></p>
<p><span style="font-size:12pt"><br>
</span></p>
<p><span style="font-size:12pt">Thanks a lot for taking time.</span></p>
<p><br>
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<p style="color:rgb(0,0,0)">Best regards,</p>
<p style="color:rgb(0,0,0)">Tofayel</p>
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<div id="x_divRplyFwdMsg" dir="ltr"><font face="Calibri, sans-serif" color="#000000" style="font-size:11pt"><b>From:</b> Elaine Meng <meng@cgl.ucsf.edu><br>
<b>Sent:</b> Saturday, April 29, 2017 5:59:22 AM<br>
<b>To:</b> #AHMED TOFAYEL#<br>
<b>Cc:</b> UCSF Chimera Mailing List<br>
<b>Subject:</b> Re: [Chimera-users] calculate FSC curve between experimental cryo EM map and model</font>
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<div class="PlainText">Dear Tofayel,<br>
Our map expert is away this week and next week. All I can suggest is to take a look at this previous post (which you may have seen already):<br>
<<a href="http://www.cgl.ucsf.edu/pipermail/chimera-users/2016-June/012366.html">http://www.cgl.ucsf.edu/pipermail/chimera-users/2016-June/012366.html</a>><br>
<br>
There is also a “localFSC” plugin to Chimera that you could get separately, see:<br>
<<a href="http://www.rbvi.ucsf.edu/chimera/plugins/plugins.html">http://www.rbvi.ucsf.edu/chimera/plugins/plugins.html</a>><br>
… however, I don’t know if it is relevant to your question.<br>
<br>
Sorry I couldn’t provide a more confident answer, Maybe other EM folks on this list will have some thoughts.
<br>
Best,<br>
Elaine<br>
-----<br>
Elaine C. Meng, Ph.D. <br>
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab<br>
Department of Pharmaceutical Chemistry<br>
University of California, San Francisco<br>
<br>
> On Apr 28, 2017, at 6:09 AM, #AHMED TOFAYEL# <TOFAYEL001@e.ntu.edu.sg> wrote:<br>
> <br>
> Dear all,<br>
> If I want to calculate FSC curve between experimental cryo EM map and model, what is the correct procedure to do so?<br>
> <br>
> I will explain what I have tried so far. Although I have variable local resolution in my map, according to FSC=0.143 criterion I have a 4 Ang map (say 1.mrc), I have used 'molmap' command in Chimera to generate a simulated map at 4 Ang. Then I used "vop resample"
to take care of the pixel and box values ( then saved as 2.mrc). Thereafter, I have used "e2proc3d.py 1.mrc fsc.txt --calcfsc=2.mrc and plotted the fsc.txt file to get the curve.
<br>
> <br>
> I am not sure if I am on the right track. My pixel size is 1.28.<br>
> Best regards,<br>
> Tofayel<br>
<br>
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