mrcImageCircumferentialProjection - Revision history

Kinoshita: /* Case: rmin=90, rmax=110, dr=1 */

2014-07-23T01:04:48Z

‎Case: rmin=90, rmax=110, dr=1

Kinoshita: /* Execution example */

2014-07-23T01:04:16Z

‎Execution example

Kinoshita: /* List of option */

2014-07-23T01:02:42Z

‎List of option

Kinoshita: Created page with "'''mrcImageCircumferentialProjection''' is Eos's Command that transforms the 3D image to a cylindrical coordinate system, and shows only that particular range. == Li..."

2014-07-23T00:55:19Z

Created page with "'''mrcImageCircumferentialProjection''' is Eos's Command that transforms the 3D image to a cylindrical coordinate system, and shows only that particular range. == Li..."

New page

'''mrcImageCircumferentialProjection''' is [[Eos]]'s [[Command]] that transforms the 3D image to a cylindrical coordinate system, and shows only that particular range.

== 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>-dang</td>
<td>Optional</td>
<td>角度の加算値: [deree]</td>
<td>10</td>
</tr>
<tr>
<td>-zmin</td>
<td>Optional</td>
<td>Zの最小値: [A]</td>
<td>0</td>
</tr>
<tr>
<td>-zmax</td>
<td>Optional</td>
<td>Zの最大値: [A]</td>
<td>100</td>
</tr>
<tr>
<td>-dz</td>
<td>Optional</td>
<td>Zの加算値: [A]</td>
<td>10</td>
</tr>
<tr>
<td>-rmin</td>
<td>Optional</td>
<td>半径の最小値: [A]</td>
<td>0</td>
</tr>
<tr>
<td>-rmax</td>
<td>Optional</td>
<td>半径の最大値: [A]</td>
<td>200</td>
</tr>
<tr>
<td>-dr</td>
<td>Optional</td>
<td>半径の加算値: [A]</td>
<td>10</td>
</tr>
<tr>
<td>-threshold</td>
<td>Optional</td>
<td>閾値を設定(平均密度が閾値以上)</td>
<td>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>平均密度を出力 (dataSum = dataSum / nang)</td>
</tr>
<tr>
<td>1</td>
<td>加重密度を出力 (dataSum = dataSum / nang *(2*PI*r))</td>
</tr>
<tr>
<td>2</td>
<td>閾値以上の平均密度を出力 (dataSum = dataSum / [nang number more than threshold value] *(2*PI*r))</td>
</tr>
</table>

== Execution example ==
===[[Media:Input-ThickFilaments2.mrc | Input file]] image===
<table>
<tr>
<td>[[File:Input-ThickFilaments2.png]] 
xy-plane 
</td>
<td>[[File:Input1-ThickFilaments2.png]] 
yz-plane 
</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0 (0, 0, 0) 
5.57707 (44, 26, 0) 
0.0491543 
0.360381 
0.000522291 
</td>
</tr>
</table>

=== Example of options only essential ===
<table>
<tr>
<td>[[File:Outdata-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0 (0, 0, 0) 
3.12088 (10, 6, 0) 
0.113243 
0.444362 
0.0292369 
</td>
</tr>
</table>

=== Option -rmin, -rmax, dr===
====rmin=90, rmax=110, dr=1====
<table>
<tr>
<td>[[File:Outdata-rminrmaxdr-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0.0895108 (20, 4, 0) 
3.12088 (10, 6, 0) 
1.12399 
0.711393 
0.0468062 
</td>
</tr>
</table>

<div>In the following, Setting atrmin=90, rmax=110, dr=1で実行</div>

=== Option -dang===
====dang=1====
<table>
<tr>
<td>[[File:Outdata-dang-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0.0659651 (20, 4, 0) 
3.25403 (9, 6, 0) 
1.16162 
0.746197 
0.0490961 
</td>
</tr>
</table>

=== Option -zmin, -zmax, -dz===
====zmin=10, zmax=50, dz=1====
=====Case: No other settings=====
<table>
<tr>
<td>[[File:Outdata-zminzmaxdz-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0.0895382 (20, 4, 0) 
2.17163 (10, 25, 0) 
1.07994 
0.645594 
0.0220018 
</td>
</tr>
</table>

=====threshold=1.8=====
<table>
<tr>
<td>[[File:Outdata-threshold-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0 (0, 0, 0) 
1.78549 (11, 25, 0) 
0.511454 
0.599524 
0.0204317 
</td>
</tr>
</table>

=== Option -m===
====m=1====
<table>
<tr>
<td>[[File:Outdata-m1-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>61.8654 (20, 4, 0) 
1960.91 (10, 6, 0) 
705.471 
447 
29.4105 
</td>
</tr>
</table>

====m=2, threshold=2====
<table>
<tr>
<td>[[File:Outdata-m2-mrcImageCircumferentialProjection.png]]</td>
<td>Min 
Max 
Mean 
SD 
SE 
</td>
<td>0 (0, 0, 0) 
3.68241 (11, 6, 0) 
1.1925 
1.19853 
0.0788573 
</td>
</tr>
</table>

@@ Line 178: / Line 178: @@
-<div>In the following, Setting atrmin=90, rmax=110, dr=1で実行</div>
+<div>In the following, Setting at rmin=90, rmax=110, dr=1</div>
-−
 === Option -dang===

@@ Line 158: / Line 158: @@
 === Option -rmin, -rmax, dr===
-====rmin=90, rmax=110, dr=1====
+====Case: rmin=90, rmax=110, dr=1====
 	<table>
 		<tr>
@@ Line 182: / Line 182: @@
 === Option -dang===
-====dang=1====
+====Case: dang=1====
 	<table>
 		<tr>
@@ Line 203: / Line 203: @@
 === Option -zmin, -zmax, -dz===
-====zmin=10, zmax=50, dz=1====
+====Case: zmin=10, zmax=50, dz=1====
 =====Case: No other settings=====
 	<table>
@@ Line 224: / Line 224: @@
-=====threshold=1.8=====
+=====Case: threshold=1.8=====
 	<table>
 		<tr>
@@ Line 245: / Line 245: @@
 === Option -m===
-====m=1====
+====Case: m=1====
 	<table>
 		<tr>
@@ Line 265: / Line 265: @@
-====m=2, threshold=2====
+====Case: m=2, threshold=2====
 	<table>
 		<tr>

@@ Line 26: / Line 26: @@
 				<td>-dang</td>
 				<td>Optional</td>
-				<td>角度の加算値: [deree]</td>
+				<td>Delta Angle: [deree]</td>
 				<td>10</td>
 			</tr>
@@ Line 32: / Line 32: @@
 				<td>-zmin</td>
 				<td>Optional</td>
-				<td>Zの最小値: [A]</td>
+				<td>Z Minimum: [A]</td>
 				<td>0</td>
 			</tr>
@@ Line 38: / Line 38: @@
 				<td>-zmax</td>
 				<td>Optional</td>
-				<td>Zの最大値: [A]</td>
+				<td>Z Maximum: [A]</td>
 				<td>100</td>
 			</tr>
@@ Line 44: / Line 44: @@
 				<td>-dz</td>
 				<td>Optional</td>
-				<td>Zの加算値: [A]</td>
+				<td>Delta Z: [A]</td>
 				<td>10</td>
 			</tr>
@@ Line 50: / Line 50: @@
 				<td>-rmin</td>
 				<td>Optional</td>
-				<td>半径の最小値: [A]</td>
+				<td>Radius Minimum: [A]</td>
 				<td>0</td>
 			</tr>
@@ Line 56: / Line 56: @@
 				<td>-rmax</td>
 				<td>Optional</td>
-				<td>半径の最大値: [A]</td>
+				<td>Radius Maximum: [A]</td>
 				<td>200</td>
 			</tr>
@@ Line 62: / Line 62: @@
 				<td>-dr</td>
 				<td>Optional</td>
-				<td>半径の加算値: [A]</td>
+				<td>Delta Radius: [A]</td>
 				<td>10</td>
 			</tr>
@@ Line 68: / Line 68: @@
 				<td>-threshold</td>
 				<td>Optional</td>
-				<td>閾値を設定(平均密度が閾値以上)</td>
+				<td>Set threshold value. (Averaged density is more than threshold value)</td>
 				<td>0</td>
 			</tr>
@@ Line 99: / Line 99: @@
 			<tr>
 				<td>0</td>
-				<td>平均密度を出力 (dataSum = dataSum / nang)</td>
+				<td>Out Put Averaged Density (dataSum = dataSum / nang)</td>
 			</tr>
 			<tr>
 				<td>1</td>
-				<td>加重密度を出力 (dataSum = dataSum / nang *(2*PI*r))</td>
+				<td>Out Put Added    Density (dataSum = dataSum / nang *(2*PI*r))</td>
 			</tr>
 			<tr>
 				<td>2</td>
-				<td>閾値以上の平均密度を出力 (dataSum = dataSum / [nang number more than threshold value] *(2*PI*r))</td>
+				<td>Out Put Averaged Density more than threshold (dataSum = dataSum / [nang number more than threshold value] *(2*PI*r))</td>
 			</tr>
 		</table>
-−
 == Execution example ==