View source for mrcRefCorrelation

'''mrcRefCorrelation''' is [[Eos]]'s [[Command]] that calculates correlation value about Reference projection 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>-r</td> 
				<td>Optional</td> 
				<td>Reference: [[mrcImage]] (For m=1 only)</td> 
				<td>NULL</td> 
			</tr> 
			<tr> 
				<td>-o</td> 
				<td>Essential</td> 
				<td>Output: [[mrcImage]]</td> 
				<td>NULL</td> 
			</tr> 
			<tr> 
				<td>-n</td> 
				<td>Optional</td> 
				<td>Number of points to pick up at random. (For M=1 only)</td> 
				<td>(Input file z) / 10</td> 
			</tr> 
			<tr> 
				<td>-c</td> 
				<td>Optional</td> 
				<td>ConfigurationFile</td> 
				<td>NULL</td> 
			</tr> 
			<tr> 
				<td>-m</td> 
				<td>Optional</td> 
				<td>Mode1</td> 
				<td>0</td> 
			</tr> 
			<tr> 
				<td>-M</td> 
				<td>Optional</td> 
				<td>Mode2</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>AutoCorrelation </td> 
			</tr> 
			<tr> 
				<td>1</td> 
				<td>CrossCorrelation</td> 
			</tr> 
		</table> 

===-M  details===
		<table border="1">
			<tr> 
				<th>Value</th> 
				<th>Description</th> 
			</tr> 
			<tr> 
				<td>0</td> 
				<td>All is to be calculated</td> 
			</tr> 
			<tr> 
				<td>1</td> 
				<td>Pick up at random</td> 
			</tr> 
			<tr> 
				<td>2</td> 
				<td>Calculate only Omega=0,Alpha=0 </td> 
			</tr> 
		</table> 


== Execution example ==
===[[Media:Input-121P1-R-N.mrc | Input file]] image===
	<table> 
		<tr> 
			<td><p align="center">[[File:Input-121P1-R-N.png]]<br> 
				z=156 ~ 170<br></p> 
			</td> 
			<td><p align="left">Size<br> 
				Mode<br> 
				Min<br> 
				Max<br> 
				Mean<br> 
				SD<br> 
				SE<br></p> 
			</td> 
			<td><p align="left">(        56,         27,        326)<br> 
				mrcFloatImage <br> 
				-27740.5 (18, 4, 153)<br> 
				49036.6 (29, 9, 108)<br> 
				6090.33<br> 
				9165.21<br> 
				13.0544<br></p> 
			</td> 
		</tr> 
	</table> 


=== Example of options only essential ===
<div>In z=0, the image information is stored.</div>
	<table> 
		<tr> 
			<td><p align="center">[[File:Outdata-mrcRefCorrelation.png]]<br> 
				z=1<br></p> 
			</td> 
			<td><p align="left">Min<br> 
				Max<br> 
				Mean<br> 
				SD<br> 
				SE<br></p> 
			</td> 
			<td><p align="left">0.235765 (44, 2, 0)<br> 
				1 (0, 0, 0)<br> 
				0.339868<br> 
				0.0484346<br> 
				0.00014903<br></p> 
			</td> 
		</tr> 
	</table> 

<div>z=1 's  image By [[mrcImageMakeDump]]</div>
<pre>
0 0 1 
1 0 0.456042 
2 0 0.397887 
3 0 0.401696 
4 0 0.36812 
5 0 0.392998 

...

40 2 0.324856 
41 2 0.301582 
42 2 0.289369 
43 2 0.260067 
44 2 0.235765 
45 2 0.293627 
46 2 0.292144 
47 2 0.348354 
48 2 0.302392 
49 2 0.271946 

...

320 324 0.370506 
321 324 0.358116 
322 324 0.353934 
323 324 0.389242 
324 324 1 
</pre>


=== Option -M===
====Case: M=1==== 
=====Case: No other settings=====
<div>Output</div>
<pre>
289 31 6 204 320 42 309 261 161 131 115 178 181 109 238 113 250 277 244
13 134 267 63 165 218 220 69 93 35 23 125 120 
</pre>

<div>z=1 's image By [[mrcImageMakeDump]]</div>
<pre>
0 0 0.272846 
1 0 0.326312 
2 0 0.392998 
3 0 0.341142 
4 0 0.341313 

...

28 0 0.295094 
29 0 0.303043 
30 0 0.36462 
31 0 0.339987 
0 1 0.305788 
1 1 0.324972 
2 1 0.372525 
3 1 0.370551 

...

27 324 0.31806 
28 324 0.354882 
29 324 0.339153 
30 324 0.376581 
31 324 0.341636 
0 325 288 
1 325 30 
2 325 5 
3 325 203 
4 325 319 

...

27 325 92 
28 325 34 
29 325 22 
30 325 124 
31 325 119 
</pre>

<div>* Picked up image's No. is stored at tail of data.</div>


====Case: n=5==== 
<div>Output</div>
<pre>
93 36 239 219 101 
</pre>

<div>z=1 's image By [[mrcImageMakeDump]]</div>
<pre>
0 0 0.253142 
1 0 0.341922 
2 0 0.33609 
3 0 0.310942 
4 0 0.315092 
0 1 0.293338 
1 1 0.339174 
2 1 0.343336 

...

0 324 0.31806 
1 324 0.303364 
2 324 0.365172 
3 324 0.347945 
4 324 0.365746 
0 325 92 
1 325 35 
2 325 238 
3 325 218 
4 325 100 
</pre>


====Case: M=2==== 
<div>Output</div>
<pre>
133 138 143 148 153 158 163 168 173 178 183 188 193 
</pre>

<div>z=1 's image By [[mrcImageMakeDump]]</div>
<pre>
0 0 0.406135 
1 0 0.375089 
2 0 0.347396 
3 0 0.351023 
4 0 0.327572 
5 0 0.320876 
6 0 0.298545 
7 0 0.322957 
8 0 0.307044 
9 0 0.293275 
10 0 0.359563 
11 0 0.321653 
12 0 0.406869 
0 1 0.428397 
1 1 0.389286 
2 1 0.338141 

...

10 324 0.33418 
11 324 0.365259 
12 324 0.376797 
0 325 132 
1 325 137 
2 325 142 
3 325 147 
4 325 152 
5 325 157 
6 325 162 
7 325 167 
8 325 172 
9 325 177 
10 325 182 
11 325 187 
12 325 192 
</pre>


=== Option -m===
====Case: m=1==== 
<div>[[Media:Input-121P1-R.mrc | Reference file]]'s image</div>
	<table> 
		<tr> 
			<td><p align="center">[[File:Input-121P1-R.png]]<br> 
				z=156 ~ 170<br></p> 
			</td> 
			<td><p align="left">Size<br> 
				Mode<br> 
				Min<br> 
				Max<br> 
				Mean<br> 
				SD<br> 
				SE<br></p> 
			</td> 
			<td><p align="left">(        56,         27,        326)<br> 
				mrcFloatImage <br> 
				-1503.16 (14, 25, 131)<br> 
				36873.4 (28, 20, 158)<br> 
				6082.23<br> 
				6479.76<br> 
				9.22942<br></p> 
			</td> 
		</tr> 
	</table> 

<div>Output file's image</div>
	<table> 
		<tr> 
			<td><p align="center">[[File:Outdata-m1-mrcRefCorrelation.png]]<br> 
				z=1<br></p> 
			</td> 
			<td><p align="left">Min<br> 
				Max<br> 
				Mean<br> 
				SD<br> 
				SE<br></p> 
			</td> 
			<td><p align="left">0.366595 (44, 5, 0)<br> 
				0.746259 (65, 65, 0)<br> 
				0.478463<br> 
				0.0394641<br> 
				0.000121428<br></p> 
			</td> 
		</tr> 
	</table>

<div>z=1 's image By [[mrcImageMakeDump]]</div>
<pre>
0 0 0.706615 
1 0 0.625646 
2 0 0.535103 
3 0 0.539974 
4 0 0.542445 

...

40 5 0.478981 
41 5 0.441631 
42 5 0.433964 
43 5 0.396314 
44 5 0.366595 
45 5 0.432156 
46 5 0.431352 
47 5 0.417774 
48 5 0.416638 
49 5 0.404879 

...

60 65 0.656008 
61 65 0.594059 
62 65 0.550396 
63 65 0.557099 
64 65 0.533312 
65 65 0.746259 
66 65 0.625441 
67 65 0.533038 
68 65 0.522493 
69 65 0.531606 

...

320 324 0.492588 
321 324 0.526999 
322 324 0.537706 
323 324 0.568111 
324 324 0.708036 
</pre>