mrcImageNormalizing - Revision history

Kinoshita: /* Execution example */

2014-10-03T04:55:24Z

‎Execution example

Kinoshita: /* -m details */

2014-10-03T04:52:37Z

‎-m details

Kinoshita: Created page with "'''mrcImageNormalizing''' is Eos's Command that performs normalizing the value of image. == List of option == === Main option === <..."
2014-07-28T23:37:27Z
Created page with "'''mrcImageNormalizing''' is Eos's Command that performs normalizing the value of image. == List of option == === Main option === <table border="1"> <tr> <..."
New page
'''mrcImageNormalizing''' is [[Eos]]'s [[Command]] that performs normalizing the value of image.

== List of option ==
=== Main 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: [[mrcImage]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-o</td>
<td>Essential</td>
<td>Output: [[mrcImage]]</td>
<td>NULL</td>
</tr>
<tr>
<td>-A</td>
<td>Optional</td>
<td>A</td>
<td>1.0</td>
</tr>
<tr>
<td>-B</td>
<td>Optional</td>
<td>B</td>
<td>0.0</td>
</tr>
<tr>
<td>-ContourMin</td>
<td>Optional</td>
<td>ContourMin</td>
<td>0.0</td>
</tr>
<tr>
<td>-ContourMax</td>
<td>Optional</td>
<td>ContourMax</td>
<td>1.0</td>
</tr>
<tr>
<td>-ContourSolvent</td>
<td>Optional</td>
<td>ContourSolvent</td>
<td>0.0</td>
</tr>
<tr>
<td>-c</td>
<td>Optional</td>
<td>ConfigurationFile</td>
<td>NULL</td>
</tr>
<tr>
<td>-m</td>
<td>Optional</td>
<td>Mode</td>
<td>0</td>
</tr>
<tr>
<td>-h</td>
<td>Optional</td>
<td>Help</td>
<td>　</td>
</tr>
</table>

=== -m details ===
<table border="1">
<tr>
<th>Value</th>
<th>Description</th>
</tr>
<tr>
<td>0</td>
<td>Double Exponential: Solvent and Object<br>
Fitting histgram to double exponentials as Solvent and Object<br>
data = A(data-MeanOfSolvent)/(MeanOfObject-MeanOfSolvent) + B </td>
</tr>
<tr>
<td>1</td>
<td>Min-Max: Background and Object<br>
data = A(data-Min)/(Max-Min) + B </td>
</tr>
<tr>
<td>2</td>
<td>Contour<br>
data = A(data-ContourMin)/(ContourMax-ContourMin) + B</td>
</tr>
<tr>
<td>3</td>
<td>Contour and Solvent<br>
if data < ContourSolvent, data = ContourSolvent. After this, calculate the below. <br>
data = A(data-ContourMin)/(ContourMax-ContourMin) + B</td>
</tr>
<tr>
<td>4</td>
<td>No Estimation<br>
data = A*data + B </td>
</tr>
</table>

== Execution example ==
===[[Media:Input-1VOM-N-2D.mrc|Input file]] image===
<table>
<tr>
<td>[[File:Input-1VOM-N-2D.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">-18651.7 (10, 1, 0)<br>
52942.7 (24, 39, 0)<br>
7214.87<br>
10067.6<br>
125.845<br></p>
</td>
</tr>
</table>
<br>

=== Example of options only essential ===
<table>
<tr>
<td>[[File:Outdata-mrcImageNormalizing.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">-0.00221962 (10, 1, 0)<br>
0.00448009 (24, 39, 0)<br>
0.000200939<br>
0.000942109<br>
1.17764e-05<br></p>
</td>
</tr>
</table>
<br>

=== Option -A, -B===
====Case: A=1000, B=3====
<table>
<tr>
<td>[[File:Outdata-m0-mrcImageNormalizing.png]]</td>
<td><p align="left">Min<br>
Max<br>
Mean<br>
SD<br>
SE<br></p>
</td>
<td><p align="left">0.780381 (10, 1, 0)<br>
7.48009 (24, 39, 0)<br>
3.20094<br>
0.942109<br>
0.0117764<br></p>
</td>
</tr>
</table>