<div style="line-height:1.7;color:#000000;font-size:14px;font-family:Arial"><div>Dear Pavel,</div><div> </div><div>Can phenix.map_comparison be used to compare CCP4 map and mtz map? How to input map files in order to use this command?</div><div> </div><div>Smith</div><div><br><br><br><br><br></div><div style="position: relative; zoom: 1;"></div><div id="divNeteaseMailCard"></div><div><br></div>At 2015-05-19 13:25:28, "Pavel Afonine" <pafonine@lbl.gov> wrote:<br> <blockquote style="margin: 0px 0px 0px 0.8ex; padding-left: 1ex; border-left-color: rgb(204, 204, 204); border-left-width: 1px; border-left-style: solid;" id="isReplyContent">
Yes: phenix.map_comparison .<br>
<br>
Pavel<br>
<br>
<div class="moz-cite-prefix">On 5/16/15 12:28 PM, Murpholino Peligro
wrote:<br>
</div>
<blockquote cite="mid:CAMdBu0WEuXgc+yGmJn=cABpkHgLbfAZyHJkr60efy1zAhRQx4Q@mail.gmail.com" type="cite">
<div dir="ltr">So...Is there a tool/program/formula to get
equivalent sigma levels between maps so they can be compared?<br>
<br>
</div>
<div class="gmail_extra"><br>
<div class="gmail_quote">2015-05-15 11:37 GMT-05:00 Pavel
Afonine <span dir="ltr"><<a href="mailto:pafonine@lbl.gov" target="_blank" moz-do-not-send="true">pafonine@lbl.gov</a>></span>:<br>
<blockquote style="margin: 0px 0px 0px 0.8ex; padding-left: 1ex; border-left-color: rgb(204, 204, 204); border-left-width: 1px; border-left-style: solid;" class="gmail_quote">Hi
Mohamed,<br>
<br>
this is not a simple topic.. Two texts I suggest to have a
look at are listed below I'm sure there are more). They may
not give you a quick solution but perhaps will explain the
issues.<br>
<br>
Acta Cryst. (2014). D70, 2593-2606<br>
Metrics for comparison of crystallographic maps<br>
<br>
Acta Cryst. (2015). D71, 646-666.<br>
FEM: feature-enhanced map<br>
<br>
In a very nutshell,<br>
<br>
- "1 sigma (or any other x sigma) level for one map may not
be the same as 1 sigma (or any other x sigma) level for
another map";<br>
- Think of "global vs local". Somehow you need to quantify
map quality locally.<br>
- Map correlation (RSCC or map CC, for alternative names)
may be a misleading metric is used without care: for
example, two poor but similar map may give you high CC.<br>
<br>
All the best,<br>
Pavel
<div>
<div class="h5"><br>
<br>
On 5/15/15 9:10 AM, mohamed noor wrote:<br>
<blockquote style="margin: 0px 0px 0px 0.8ex; padding-left: 1ex; border-left-color: rgb(204, 204, 204); border-left-width: 1px; border-left-style: solid;" class="gmail_quote">
Dear all<br>
<br>
Is there a single (or a few) metrics that can be used
to quantitatively assess map quality instead of
looking at each one in Coot? For example, I want to
compare the effect of having low completeness in the
low resolution shells.<br>
<br>
Thanks.<br>
</blockquote>
<br>
</div>
</div>
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