Kinoshita: Created page with "'''mrcImageAverage''' is Eos's Command that creates Averaged image from some images. When dealing with a lot of Particle's images as [[Single particle analysis..."

2014-07-17T02:51:26Z

Created page with "'''mrcImageAverage''' is Eos's Command that creates Averaged image from some images. When dealing with a lot of Particle's images as [[Single particle analysis..."

New page

'''mrcImageAverage''' is [[Eos]]'s [[Command]] that creates [[Averaged image]] from some images. When dealing with a lot of [[Particle]]'s images as [[Single particle analysis]], it is effective that we get the [[Averaged image]]. Noise is reduced by an average of the image. Thus the accuracy of the [[Angle]] determined is improved, and when perfoming [[3D Reconstruction]], Improvement of [[Resolution]] is expected. Refer to the [[Averaged image]] for more information.

And when making the averaged image from incomplete 3-dimensional image in the direction of the projection, it is effective that we make averaged with the information such as missing area. Hence, it is effective that we use the information file of reconstructing image like DoubleCounter's file (by [[mrc2Dto3D]] setting -w) for the reconstruction. In order to also include information reflecting the number of files of the projected image, DoubleCounter's file can be used directly the average.

== List of option ==
<table border="1">
<tr>
<th>Option</th>
<th>Essential/Optional</th>
<th>Description</th>
<th>Default</th>
</tr>
<tr>
<td>-i</td>
<td>Essential</td>
<td>Input: [[ASCII]] ([[mrcImage]] file list)</td>
<td>NULL</td>
</tr>
<tr>
<td>-o</td>
<td>Essential</td>
<td>Output: [[mrcImage]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-w</td>
<td>Optional</td>
<td>Input: [[ASCII]] (Weight file list): DoubleCounter's file by [[mrc2Dto3D]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-oW</td>
<td>Optional</td>
<td>Output: [[mrcImage]] (Weight file)</td>
<td>NULL</td>
</tr>
<tr>
<td>-h</td>
<td>Optional</td>
<td>Help</td>
<td>　</td>
</tr>
</table>

== Execution example ==
===The average of the two-dimensional image===
====Input file's data====
<pre>
1vom-rot0.mrc
1vom-rot1.mrc
1vom-rot2.mrc
1vom-rot3.mrc
</pre>

=====1vom-rot0.mrc details=====
<table>
<tr>
<td>[[File:1vom-rot0-mrcImageAverage.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">0<br>
73.1421<br>
6.29881<br>
20.4635<br>
0.215447<br></p>
</td>
</tr>
</table>

=====1vom-rot1.mrc details=====
<table>
<tr>
<td>[[File:1vom-rot1-mrcImageAverage.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">0<br>
77.0909<br>
6.29894<br>
14.3204<br>
0.223756<br></p>
</td>
</tr>
</table>

=====1vom-rot2.mrc details=====
<table>
<tr>
<td>[[File:1vom-rot2-mrcImageAverage.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">0<br>
83.9283<br>
6.29888<br>
15.77<br>
0.246406<br></p>
</td>
</tr>
</table>

=====1vom-rot3.mrc details=====
<table>
<tr>
<td>[[File:1vom-rot3-mrcImageAverage.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">0<br>
87.0306<br>
6.29884<br>
15.437<br>
0.241203<br></p>
</td>
</tr>
</table>

====Output====
<table>
<tr>
<td>[[File:Outdata-mrcImageAverage.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">0<br>
70.8404<br>
6.29887<br>
14.3507<br>
0.224229<br></p>
</td>
</tr>
</table>
<br>

===The average of the three-dimensional image===
====Input file's data====
<div>-i 's data</div>
<pre>
1WDC-Tom-1.3d
1WDC-Tom-2.3d

</pre>

<div>[[Media:1WDC-Tom-1.3d|1WDC-Tom-1.3d]]'s image</div>
<table>
<tr>
<td><p align="Center">[[File:1WDC-Tom-1-0.png]]<br>
xy-plane<br></p>
</td>
<td><p align="Center">[[File:1WDC-Tom-1-1.png]]<br>
yz-plane<br></p>
</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">-1.0037 (36, 18, 37)<br>
1.99054 (33, 40, 32)<br>
0.0116138<br>
0.0958051<br>
0.000187119<br></p>
</td>
</tr>
</table>

<div>[[Media:1WDC-Tom-2.3d|1WDC-Tom-1.3d]]'s image</div>
<table>
<tr>
<td><p align="Center">[[File:1WDC-Tom-2-0.png]]<br>
xy-plane<br></p>
</td>
<td><p align="Center">[[File:1WDC-Tom-2-1.png]]<br>
yz-plane<br></p>
</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">-1.085 (36, 18, 37)<br>
2.01411 (37, 34, 35)<br>
0.0116637<br>
0.101949<br>
0.000199119<br></p>
</td>
</tr>
</table>
<br>

<div>-w 's data</div>
<pre>
1WDC-Tom-1.3dcounter
1WDC-Tom-2.3dcounter

</pre>
<div>[[Media:1WDC-Tom-1.3dcounter|1WDC-Tom-1.3dcounter]]</div>
<div>[[Media:1WDC-Tom-2.3dcounter|1WDC-Tom-2.3dcounter]]</div>
<br>

==== Example of options only essential ====
<table>
<tr>
<td><p align="Center">[[File:Outdata0-mrcImageAverage.png]]<br>
xy-plane<br></p>
</td>
<td><p align="Center">[[File:Outdata1-mrcImageAverage.png]]<br>
yz-plane<br></p>
</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">-1.04435 (36, 18, 37)<br>
1.74931 (33, 40, 32)<br>
0.0116387<br>
0.0856551<br>
0.000167295<br></p>
</td>
</tr>
</table>
<br>

==== Option -w====
=====Case: Setting -w's file=====
<table>
<tr>
<td><p align="Center">[[File:Outdata0-w-mrcImageAverage.png]]<br>
xy-plane<br></p>
</td>
<td><p align="Center">[[File:Outdata1-w-mrcImageAverage.png]]<br>
yz-plane<br></p>
</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">-1.08915 (36, 18, 37)<br>
1.90308 (33, 40, 32)<br>
0.0116386<br>
0.088767<br>
0.000173373<br></p>
</td>
</tr>
</table>
<div>The weight file in the output file of -o is created when you set the -oW, can be used in the averaging it again.</div>
<br>

mrcImageAverage - Revision history

Kinoshita: Created page with "'''mrcImageAverage''' is Eos's Command that creates Averaged image from some images. When dealing with a lot of Particle's images as [[Single particle analysis..."