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mrcImageVarianceAnalysis - Revision history
2026-06-04T14:52:16Z
Revision history for this page on the wiki
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http://www.yasunaga-lab.bio.kyutech.ac.jp/Eos/index.php?title=mrcImageVarianceAnalysis&diff=2684&oldid=prev
Kinoshita: /* Only Input file */
2014-08-04T06:18:48Z
<p><span dir="auto"><span class="autocomment">Only Input file</span></span></p>
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<td colspan='2' style="background-color: white; color:black; text-align: center;">← Older revision</td>
<td colspan='2' style="background-color: white; color:black; text-align: center;">Revision as of 06:18, 4 August 2014</td>
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<tr><td class='diff-marker'>−</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #ffe49c; vertical-align: top; white-space: pre-wrap;"><div>===<del class="diffchange diffchange-inline">Only </del>Input file===</div></td><td class='diff-marker'>+</td><td style="color:black; font-size: 88%; border-style: solid; border-width: 1px 1px 1px 4px; border-radius: 0.33em; border-color: #a3d3ff; vertical-align: top; white-space: pre-wrap;"><div>===<ins class="diffchange diffchange-inline">Example of </ins>Input file <ins class="diffchange diffchange-inline">only</ins>===</div></td></tr>
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Kinoshita
http://www.yasunaga-lab.bio.kyutech.ac.jp/Eos/index.php?title=mrcImageVarianceAnalysis&diff=2683&oldid=prev
Kinoshita: Created page with "'''mrcImageVarianceAnalysis''' is Eos's Command that performs Variance Analysis. == List of option == === Main option === <table border="1"> <tr> <th>Optio..."
2014-08-04T06:17:18Z
<p>Created page with "'''mrcImageVarianceAnalysis''' is <a href="/Eos/index.php/Eos" title="Eos">Eos</a>'s <a href="/Eos/index.php/Command" title="Command">Command</a> that performs Variance Analysis. == List of option == === Main option === <table border="1"> <tr> <th>Optio..."</p>
<p><b>New page</b></p><div>'''mrcImageVarianceAnalysis''' is [[Eos]]'s [[Command]] that performs Variance Analysis.<br />
<br />
<br />
== List of option ==<br />
=== Main option ===<br />
<table border="1"><br />
<tr> <br />
<th>Option</th> <br />
<th>Essential/Optional</th> <br />
<th>Description</th> <br />
<th>Default</th> <br />
</tr> <br />
<tr> <br />
<td>-i</td> <br />
<td>Optional</td> <br />
<td>Input: [[ASCII]](File List)</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-r</td> <br />
<td>Optional</td> <br />
<td>Ref: InputList</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-o</td> <br />
<td>Optional</td> <br />
<td>Output: Variance Probability</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-v</td> <br />
<td>Optional</td> <br />
<td>Output: Variance Analysis</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-c</td> <br />
<td>Optional</td> <br />
<td>ConfigurationFile</td> <br />
<td>NULL</td> <br />
</tr> <br />
<tr> <br />
<td>-m</td> <br />
<td>Optional</td> <br />
<td>Mode</td> <br />
<td>0</td> <br />
</tr> <br />
<tr> <br />
<td>-h</td> <br />
<td>Optional</td> <br />
<td>Help</td> <br />
<td> </td> <br />
</tr> <br />
</table> <br />
<br />
=== -m details ===<br />
<table border="1"><br />
<tr> <br />
<th>Value</th> <br />
<th>Description</th> <br />
</tr> <br />
<tr> <br />
<td>0</td> <br />
<td></td> <br />
</tr> <br />
</table> <br />
<br />
===-i format===<br />
<pre><br />
Input1<br />
Input2<br />
Input3<br />
.<br />
.<br />
.<br />
</pre><br />
<br />
====Iuput1, 2, ... format====<br />
<pre><br />
mrcFile1 A B<br />
mrcFile2 A B<br />
. . .<br />
. . .<br />
</pre><br />
<br />
<div>A + B*density </div><br />
<br />
<br />
===Algorithm of Variance Analysis===<br />
<pre><br />
VarianceRatio := VarinceBetweenClasses/(SumOfVarianceWithinEachClass)<br />
VarinceBetweenClasses: variance between classes<br />
VarinceWithClasses: variance within each class <br />
</pre><br />
<br />
====General Information====<br />
<pre><br />
Kai-distribution: Kai^2 = SumOf (Xi - AvgOfXi)^2/sigma^2 <br />
= s^2*(n-1)/sigma^2 : degree of freedom n-1 <br />
when variables Xi are due to N(u, sigma^2)<br />
Kai-distribution: Kai^2 = Kai1^2 + Kai2^2 : degree of freedom m1 + m2<br />
F-distribution: F = (Kai1^2/k1)/(Kai2^2/k2) : degree of freedom : (k1, k2)<br />
(s1^2/sigma1^2)/(s2^2/sigma2^2) : degree of freedom : (k1-1, k2-1)<br />
If sigma1 == sigma2, then <br />
s1^2/s2^2 (Variance Ratio) : degree of freedom : (k1-1, k2-1)<br />
</pre><br />
<br />
<br />
== Execution example ==<br />
===Input file's data===<br />
<pre><br />
/Eos/data/Input1.txt<br />
/Eos/data/Input2.txt<br />
/Eos/data/Input3.txt<br />
<br />
</pre><br />
<br />
<div>Input1's data</div><br />
<pre><br />
/Eos/img/1VOM-40.mrc 0 1<br />
/Eos/img/1VOM-45.mrc 1 1<br />
<br />
</pre><br />
<br />
<div>[[Media:1VOM-40.mrc|1VOM-40.mrc]]'s image</div><br />
<table> <br />
<tr> <br />
<td>[[File:1VOM-40.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0 (0, 0, 0)<br> <br />
3077.54 (41, 49, 0)<br> <br />
126.786<br> <br />
387.323<br> <br />
4.84154<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<div>[[Media:1VOM-45.mrc|1VOM-45.mrc]]'s image</div><br />
<table> <br />
<tr> <br />
<td>[[File:1VOM-45.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0 (0, 0, 0)<br> <br />
3099.59 (17, 62, 0)<br> <br />
123.791<br> <br />
381.654<br> <br />
4.77068<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<div>Input2's data</div><br />
<pre><br />
/Eos/img/1VOM-50.mrc 0 1<br />
/Eos/img/1VOM-55.mrc 0 1<br />
<br />
</pre><br />
<br />
<div>[[Media:1VOM-50.mrc|1VOM-50.mrc]]'s image</div><br />
<table> <br />
<tr> <br />
<td>[[File:1VOM-50.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0 (0, 0, 0)<br> <br />
3095.88 (33, 57, 0)<br> <br />
143.393<br> <br />
399.986<br> <br />
4.99982<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<div>[[Media:1VOM-55.mrc|1VOM-55.mrc]]'s image</div><br />
<table> <br />
<tr> <br />
<td>[[File:1VOM-55.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0 (0, 0, 0)<br> <br />
3044.97 (51, 58, 0)<br> <br />
148.952<br> <br />
413.856<br> <br />
5.1732<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<div>Input3's data</div><br />
<pre><br />
/Eos/img/1VOM-60.mrc 0 1<br />
/Eos/img/1VOM-65.mrc 0 1<br />
<br />
</pre><br />
<br />
<div>[[Media:1VOM-60.mrc|1VOM-60.mrc]]'s image</div><br />
<table> <br />
<tr> <br />
<td>[[File:1VOM-60.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0 (0, 0, 0)<br> <br />
3026.91 (50, 47, 0)<br> <br />
129.875<br> <br />
386.428<br> <br />
4.83035<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<div>[[Media:1VOM-65.mrc|1VOM-65.mrc]]'s image</div><br />
<table> <br />
<tr> <br />
<td>[[File:1VOM-65.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0 (0, 0, 0)<br> <br />
3308.47 (26, 42, 0)<br> <br />
105.169<br> <br />
351.901<br> <br />
4.39877<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<br />
===Only Input file===<br />
<div>-o 's image</div><br />
<table> <br />
<tr> <br />
<td>[[File:Outdata-mrcImageVarianceAnalysis.png]]</td> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">50.0673 (30, 27, 0)<br> <br />
100 (14, 67, 0)<br> <br />
887.0022<br> <br />
7.68589<br> <br />
0.0960736<br></p> <br />
</td> <br />
</tr> <br />
</table> <br />
<br />
<div>-v 's image</div><br />
<table> <br />
<tr> <br />
<td><p align="left">Min<br> <br />
Max<br> <br />
Mean<br> <br />
SD<br> <br />
SE<br></p> <br />
</td> <br />
<td><p align="left">0.00134705 (30, 27, 0)<br> <br />
165008 (14, 67, 0)<br> <br />
44.5458<br> <br />
2086.16<br> <br />
26.077<br></p> <br />
</td> <br />
</tr> <br />
</table><br />
<br />
<div>By [[mrcImageMakeDump]]</div><br />
<pre><br />
0 0 3 <br />
1 0 3 <br />
2 0 3 <br />
3 0 3 <br />
4 0 3 <br />
<br />
...<br />
<br />
28 27 1.06282 <br />
29 27 1.17063 <br />
30 27 0.00134705 <br />
31 27 0.0869645 <br />
32 27 0.158319 <br />
<br />
...<br />
<br />
12 67 4.90624 <br />
13 67 4.19018 <br />
14 67 165008 <br />
15 67 3.26777 <br />
16 67 2.0586 <br />
<br />
...<br />
<br />
75 79 3 <br />
76 79 3 <br />
77 79 3 <br />
78 79 3 <br />
79 79 3 <br />
</pre></div>
Kinoshita