Electron Tomography - Revision history

Kinoshita: /* take tilt-series images */

2014-09-29T04:26:07Z

‎take tilt-series images

Kinoshita: /* Example2 */

2014-09-29T04:23:45Z

‎Example2

Kinoshita: /* Averaging of Subtomograms */

2014-09-29T04:21:58Z

‎Averaging of Subtomograms

Kinoshita: /* 実行例2 */

2014-09-29T04:21:02Z

‎実行例2

Kinoshita: /* Example1 */

2014-09-29T04:01:49Z

‎Example1

Kinoshita: /* Averaging of Subtomograms */

2014-09-29T03:04:11Z

‎Averaging of Subtomograms

Kinoshita: /* Segmentation */

2014-09-29T02:54:21Z

‎Segmentation

Kinoshita: /* Interpretation of 3D Reconstruction */

2014-09-29T02:47:42Z

‎Interpretation of 3D Reconstruction

Kinoshita: /* Cut out 2D image */

2014-09-29T02:42:17Z

‎Cut out 2D image

Kinoshita: /* Example2(Subtomogram of 2 axis tilt) */

2014-09-29T02:30:33Z

‎Example2(Subtomogram of 2 axis tilt)

@@ Line 10: / Line 10: @@
 		<tr>
 			<td>[[File:Input-Tomogram1.png]]<br>
-				<p align="Center">1 Axis Tilt(Center is 0°'s image)<br></p>
+				<p align="Center">1 Axis Tilt(Center is untilted image)<br></p>
 			</td>
 		</tr>
@@ Line 20: / Line 20: @@
 		<tr>
 			<td>[[File:Input-Tomogram2.png]]<br>
-				<p align="Center">2 Axis Tilt(Center is 0°'s image)(as 90° rotation image for 1 Axis Tilt's image)<br></p>
+				<p align="Center">2 Axis Tilt(Center is untilted image)(as 90° rotation image for 1 Axis Tilt's image)<br></p>
 			</td>
 		</tr>

@@ Line 1,259: / Line 1,259: @@
 <div>Command: [[mrcImageAutoRotationCorrelation3D]] -i p1-0001.mrc3d -r Target.mrc3dref -fit p1-0001.3dfit -EA XEYR -Rot1 0 355 5 -Rot2 0 355 5 -Rot3 0 0 30 -M 18</div>
 <br>
-<div>[[Media:Input-Fit-SubTomogram1.zip|Corrected data]](-fitのOutput file)</div>
+<div>[[Media:Input-Fit-SubTomogram1.zip|Corrected data]](-fit 's Output file)</div>
 	<table>
 		<tr>

@@ Line 1,228: / Line 1,228: @@
 <br>
-<div>[[Media:Input-TomogramSub1.mrc|Reference file]](Input fileの先頭のdataを使用)</div>
+<div>[[Media:Input-TomogramSub1.mrc|Reference file]](Use top data of Input file)</div>
 	<table>
 		<tr>

@@ Line 1,210: / Line 1,210: @@
 <br>
-====実行例2====
+====Example2====
 <div>[[Media:Outdata-Tomogram.zip|Input file]]</div>
 	<table>
@@ Line 1,256: / Line 1,256: @@
 <br>
-<div>同様にまず向きを合わせます.</div>
+<div>First, perform alignment as well.</div>
-<div>コマンド: [[mrcImageAutoRotationCorrelation3D]] -i p1-0001.mrc3d -r Target.mrc3dref -fit p1-0001.3dfit -EA XEYR -Rot1 0 355 5 -Rot2 0 355 5 -Rot3 0 0 30 -M 18</div>
+<div>Command: [[mrcImageAutoRotationCorrelation3D]] -i p1-0001.mrc3d -r Target.mrc3dref -fit p1-0001.3dfit -EA XEYR -Rot1 0 355 5 -Rot2 0 355 5 -Rot3 0 0 30 -M 18</div>
 <br>
-<div>[[Media:Input-Fit-SubTomogram1.zip|補正後のdata]](-fitのOutput file)</div>
+<div>[[Media:Input-Fit-SubTomogram1.zip|Corrected data]](-fitのOutput file)</div>
 	<table>
 		<tr>
@@ Line 1,276: / Line 1,276: @@
 <br>
-<div>Reference fileに向きを合っているものと合っていないものがあります.<br>
+<div>Some fits the reference file, and some are otherwise.<br>
-これはそれぞれのサブトモグラムの３次元像にてミッシングエリアが異なるので,どちらかにdataがない角度では相関値が大Widthに下がってしまうためです.</div>
+Because each 3D subtomogram image has different "Missing Area". Thus the correlation value of the orientation that is included in not both of them is Considerably lower.</div>
 <div>[[File:Fig-SubTomogram.png]]</div>
 <br>
-<div>補正fileに対し,[[mrcImageAverage]]にて平均化を行います.</div>
+<div>Perform averaging of Corrected files by using [[mrcImageAverage]].</div>
 <div>Output file</div>
 	<table>

@@ Line 1,129: / Line 1,129: @@
 <br>
-<div>３次元像を平均化する前に[[mrcImageAutoRotationCorrelation3D]]を使って,向きを合わせます.</div>
+<div>align by using [[mrcImageAutoRotationCorrelation3D]] before averaging 3D image.</div>
 <br>
-<div>[[Media:Input-TomogramSub.mrc|Reference file]](Input fileの真ん中のdataを使用)</div>
+<div>[[Media:Input-TomogramSub.mrc|Reference file]](Center data of Input file)</div>
 	<table>
 		<tr>
@@ Line 1,160: / Line 1,160: @@
 <br>
-<div>コマンド: [[mrcImageAutoRotationCorrelation3D]] -i c1-1.mrc -r c2-2.mrc -fit f1-1.mrc -EA YOYS -Rot1 0 0 30 -Rot2 0 330 30 -Rot3 0 330 30 -Xrange 0 0 -Yrange 0 0  -Zrange 0 0  </div>
+<div>Command: [[mrcImageAutoRotationCorrelation3D]] -i c1-1.mrc -r c2-2.mrc -fit f1-1.mrc -EA YOYS -Rot1 0 0 30 -Rot2 0 330 30 -Rot3 0 330 30 -Xrange 0 0 -Yrange 0 0  -Zrange 0 0  </div>
 <br>
-<div>[[Media:Input-Fit-SubTomogram.zip|補正後のdata]](-fitのOutput file)</div>
+<div>[[Media:Input-Fit-SubTomogram.zip|corrected data]](-fit 's Output file)</div>
 	<table>
 		<tr>
@@ Line 1,180: / Line 1,180: @@
 <br>
-<div>補正fileに対し,[[mrcImageAverage]]にて平均化を行います.</div>
+<div>Perform Averaging of corrected files by [[mrcImageAverage]].</div>
 <div>Output file</div>
 	<table>
@@ Line 1,207: / Line 1,207: @@
 		</tr>
 	</table>
-<div>平均化することにより３次元像の質(特にyz-plane)が良くなりました.</div>
+<div>3D image's quality has been improved by averaging. (Particular, xy-plane)</div>
 <br>

@@ Line 1,077: / Line 1,077: @@
 === [[Averaging of Subtomograms]]===
-<div>　セグメンテーションによって分割された３次元data同士が別方向を向いている同じ粒子であるとき,それを平均化することでミッシングエリアを補間し,より精密な３次元像にすることができます.</div>
+<div>　If each 3D data that is divided by segmentation is same particle and have different angle, these average image interpolates these "Missing Area", and makes more correct 3D image.</div>
 <br>
-<div>分割したdata1</div>
+<div>Divided data1</div>
 	<table>
 		<tr>
@@ Line 1,088: / Line 1,088: @@
 		</tr>
 	</table>
-<div>分割したdata2(90°向きが違う)</div>
+<div>Divided data2(90° rotation)</div>
 	<table>
 		<tr>
@@ Line 1,096: / Line 1,096: @@
 		</tr>
 	</table>
-<div>平均したdata</div>
+<div>Average data</div>
 	<table>
 		<tr>
@@ Line 1,111: / Line 1,111: @@
 <br>
-====実行例1====
+====Example1====
 <div>[[Media:Input-Mean-SubTomogram.zip|Input file]]</div>
 	<table>

@@ Line 764: / Line 764: @@
 === Segmentation ===
-<div>　Cut out essential parts from 2D or 3D image.</div>
+　Because tomogram contains a variety of structures, it requires tasks such as cutting out a segment of interest from the 3D image. Support software is required for it. There is cutting out from 2D image in some cases.<br>
 <br>

@@ Line 1,074: / Line 1,074: @@
 == [[Interpretation of 3D Reconstruction]] ==
-　また,多様な構造を含むため,３次元画像から興味あるセグメントを切り出すなどの作業が必要です.そのための支援ソフトウェアが必要です.
 === [[Averaging of Subtomograms]]===

@@ Line 1,042: / Line 1,042: @@
 <br>
-<div>自動で切り出された画像(縦: 選択範囲毎, 横: file(角度)毎)(.pad)</div>
+<div>cut out automatically images(columns: each selected range, rows: each file(angle))(.pad)</div>
 	<table>
 		<tr>
 			<td><p align="Center">[[File:Tomogram2-Segmanetation1.png]]<br>
-				DataA(x-axis回転)<br></p>
+				DataA(x-axis tilt)<br></p>
 			</td>
 			<td><p align="Center">[[File:Tomogram2-Segmanetation2.png]]<br>
-				DataB(y-axis回転)<br></p>
+				DataB(y-axis tilt)<br></p>
 			</td>
 		</tr>
 	</table>
-<div>切り出しサイズがバラバラで分かりにくくなっていますが,いずれの傾斜軸でもROIfileが自動で切り出されています.</div>
+<div>ROI files have been cut out automatically for each tilt axis. (It is not easy that each of parts is found, because each size are different...)</div>
 <br>
-<div>再構成されたそれぞれの３次元画像(.mrc3d)</div>
+<div>Reconstructed 3D images(.mrc3d)</div>
 	<table>
 		<tr>

@@ Line 1,009: / Line 1,009: @@
 <br>
-<div>[[:Media:Makefile-Tomogram5.zip|こちらのMakefile]].</div>
+<div>Use [[:Media:Makefile-Tomogram5.zip|This Makefile]].</div>
 <br>
-<div>コマンド</div>
+<div>Command</div>
 <pre>
 make all
@@ Line 1,018: / Line 1,018: @@
 <br>
-<div>今回はこの領域でROIfileの切り出しを行います.</div>
+<div>This time, cut out ROI files about these regions.</div>
 <div>[[File:Tomogram2-Segmanetation.png]]</div>
-<div>今回OutputしたInformationfile</div>
+<div>Output Information files</div>
 <pre>
 DataA_006-0000.roi Rect        0.722314      137.147614       33.000000      106.000000       49.053597      122.636041       16.775911      153.783654