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main:estimatedose [2017/04/17 18:22]
127.0.0.1 external edit 		main:estimatedose [2018/02/02 15:48] (current)
bshirley
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 ====== Estimate dose ====== ====== Estimate dose ======
-For most purposes, the end goal of ADCI software is to provide the estimated radiation dose (in Gy) of test samples. In order to generate the estimated dose, processed samples and a calibration curve must be present. Alternatively, dose estimation can also be performed on dicentric frequency alone without the presence of a curve. However, when entering dicentric frequency alone, the [[main:doseestimationwizard | dose estimation wizard]] cannot be used. +For most purposes, the end goal of ADCI software is to provide the estimated radiation dose (in Gy) of test samples. In order to generate the estimated dose, processed samples and a calibration curve must be present. Alternatively, dose estimation can also be performed on dicentric frequency alone without the presence of a curve.   
 + 
 +<WRAP round info> 
 +When performing dose estimation, it is generally preferable to use the [[main:doseestimationwizard | dose estimation wizard]] instead of manually importing/entering values as described on this page. The wizard seamlessly prompts you to select a [[main:calibrationcurve | calibration curve]] and [[main:processedsample | processed samples]] and applies the same [[main:imageselectionmodel | image selection model]] to the samples that was used when generating the curve. However, to examine dicentric frequency alone without the presence of a curve, the dose estimation wizard cannot be used and a method to do so is described below. 
 + 
 +</WRAP>
  
 ===== Dose calculator ===== ===== Dose calculator =====
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 <WRAP group> <WRAP group>
 <WRAP half column> <WRAP half column>
-  * **Information about selected calibration curve**\\ The curve ID and SVM sigma value of the highlighted curve when opening the dose calculator is listed at the bottom of the dialog. Ensure the correct curve has been selected. +  * **Information about selected calibration curve**\\ The curve ID and SVM sigma value of the highlighted curve is listed under the heading "Curve used for dose estimation". Ensure the correct curve has been selected. 
-  * **Add a sample to DC Aberrations for Dose Estimation list**\\ To populate the list based on one or more processed samples, highlight the appropriate test samples within the "Processed Samples in WorkSpace" list on the right side of the dialog then click the {{file:icon:mail_receive.png?nolink&20}} icon.+  * **Add a sample to DC Aberrations for Dose Estimation list**\\ To populate the list based on one or more processed samples, click "Import", highlight the appropriate test samples, and choose an SVM Sigma value (see below).
   * **Select SVM Sigma value**\\ When samples are added to the "DC Aberrations for Dose Estimation" list an [[main:svmsigma | SVM sigma value]] must be chosen. It is highly recommended to choose the same SVM sigma value used to create the selected calibration curve found at the bottom of the dialog.   * **Select SVM Sigma value**\\ When samples are added to the "DC Aberrations for Dose Estimation" list an [[main:svmsigma | SVM sigma value]] must be chosen. It is highly recommended to choose the same SVM sigma value used to create the selected calibration curve found at the bottom of the dialog.
 <WRAP round important>Dicentric chromosome counts are influenced by the SVM sigma value. If overall dicentric chromosome counts within test samples and calibration samples are made based on different SVM sigma values, the results may not be as accurate.</WRAP> <WRAP round important>Dicentric chromosome counts are influenced by the SVM sigma value. If overall dicentric chromosome counts within test samples and calibration samples are made based on different SVM sigma values, the results may not be as accurate.</WRAP>
-  * **Add additional samples if necessary**\\ The above two steps can be repeated to add additional samples. Note you can add multiple samples at the same time by highlighting multiple samples in the "Processed Samples in WorkSpace" list. +  * **Add additional samples if necessary**\\ The above two steps can be repeated to add additional samples. Note you can add multiple samples at the same time by highlighting multiple samples in the "Import Sample(s) from WorkSpace" dialog which appears after clicking "Import". 
-  * **Remove samples if necessary**\\ To remove a sample from the "DC Aberrations for Dose Estimation" list, highlight the appropriate samples to be removed and click the {{file:icon:mail_delete.png?nolink&20}} icon. +  * **Remove samples if necessary**\\ To remove a sample from the "DC Aberrations for Dose Estimation" list, highlight the appropriate samples to be removed and click "Remove". 
   * **Click "OK" to finish**\\ Dose estimation results can now be found in the [[main:console | console]]. Additionally, the [[main:plots | plot display]] is updated to show a visual representation of the dose estimate(s).   * **Click "OK" to finish**\\ Dose estimation results can now be found in the [[main:console | console]]. Additionally, the [[main:plots | plot display]] is updated to show a visual representation of the dose estimate(s).
 </WRAP> </WRAP>
 <WRAP half column> <WRAP half column>
 {{ file:dialog:DoseCalculator.png?nolink }} {{ file:dialog:DoseCalculator.png?nolink }}
-{{ file:dialog:DoseEstimationSelectAberration.png?nolink }} 
 </WRAP> </WRAP>
 </WRAP> </WRAP>
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 <WRAP group> <WRAP group>
 <WRAP half column> <WRAP half column>
-  * **Information about selected calibration curve**\\ The curve ID and SVM sigma value of the highlighted curve when opening the dose calculator is listed at the bottom of the dialog. Ensure the correct curve has been selected. +  * **Information about selected calibration curve**\\ The curve ID and SVM sigma value of the highlighted curve is listed under the heading "Curve used for dose estimation". Ensure the correct curve has been selected. 
-  * **Manually add values to DC Aberrations for Dose Estimation list**\\ To populate the list manually, click the {{file:icon:mail_write.png?nolink&20}} icon and enter the dicentric frequency in the popup dialog. +  * **Manually add values to DC Aberrations for Dose Estimation list**\\ To populate the list manually, click the "Input" dicentric frequency in the popup dialog. 
-  * **Add additional DC frequencies if necessary**\\ The above two steps can be repeated to add additional DC frequencies.+  * **Add additional DC frequencies if necessary**\\ The above step can be repeated to add additional DC frequencies.
   * **Assign names to manually entered DC frequencies**\\ Names can be assigned to manually entered DC frequencies by double clicking on the appropriate "Name" field within the "DC Aberrations for Dose Estimation" list. Naming entries is helpful if multiple entries are present as dose estimation results are labelled by name.    * **Assign names to manually entered DC frequencies**\\ Names can be assigned to manually entered DC frequencies by double clicking on the appropriate "Name" field within the "DC Aberrations for Dose Estimation" list. Naming entries is helpful if multiple entries are present as dose estimation results are labelled by name. 
-  * **Remove samples if necessary**\\ To remove a sample from the "DC Aberrations for Dose Estimation" list, highlight the appropriate samples to be removed and click the {{file:icon:mail_delete.png?nolink&20}} icon. +  * **Remove samples if necessary**\\ To remove a sample from the "DC Aberrations for Dose Estimation" list, highlight the appropriate samples to be removed and click "Remove". 
   * **Click "OK" to finish**\\ Dose estimation results can now be found in the [[main:console | console]]. Additionally, the [[main:plots | plot display]] is updated to show a visual representation of the dose estimate(s).   * **Click "OK" to finish**\\ Dose estimation results can now be found in the [[main:console | console]]. Additionally, the [[main:plots | plot display]] is updated to show a visual representation of the dose estimate(s).
  
main/estimatedose.1492453325.txt.gz · Last modified: 2017/04/17 18:22 by 127.0.0.1

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