ADCI Wiki

User Tools

Site Tools

Trace:
main:plots

Differences

This shows you the differences between two versions of the page.

Link to this comparison view

Next revision 		Previous revision
Next revision Both sides next revision
main:plots [2017/04/07 15:43]
127.0.0.1 external edit 		main:plots [2018/01/26 17:17]
bshirley
Line 1: Line 1:
 ====== Plots ====== ====== Plots ======
-A variety of plots are available in ADCI software. [[main:estimatedose | Dose estimation]] automatically generates a plot upon execution, while the other plots are generates upon request.+A variety of plots are available in ADCI software. [[main:estimatedose | Dose estimation]] automatically generates a plot upon execution, while the other plots are generated upon request.
  
-===== Show distribution of detected DCs in Sample =====+===== Zoom and pan functionality ===== 
 +**Feature present since ADCI version 1.9** 
 +<WRAP group> 
 +<WRAP column half> 
 +=== Zoom === 
 +Zoom in and out using the mouse wheel. Note the zoom functionality zooms in on both the x and y axis. Plot axes are rescaled as necessarily while zooming. The default level of zoom ensures all data points are contained within the visible area (viewport). After zooming, please note some datapoints may be present outside the field of view. For example, the two screenshots to the right of this text depict default zoom (upper screenshot) and increased zoom (lower screenshot). The leftmost bar in the lower screenshot extends beyond the top of the plot viewport.  
 + 
 +=== Pan === 
 +If the viewport has been zoomed in, the viewport can be moved without altering the zoom level in a "drag and drop" manner by holding down the mouse button and moving the mouse. When the mouse button is held down, moving the mouse in any direction will move the plot viewport. When attempting to click and hold the mouse button to begin panning, ensure the cursor is within the boundaries of the plot. Attempting to pan while the cursor is outside of the plot viewport will cause the window itself to be moved instead. If this occurs it may cause the plot area to "pop out" of the main ADCI window and become a separate window. It can be reattached by simply dragging the plot area back into position in the main ADCI window. 
 + 
 +=== Rescale to default position === 
 +Click the "Rescale" button above the plot viewport to reset the zoom level and pan position to default.  
 + 
 +</WRAP> 
 +<WRAP column half> 
 +{{file:plot:NoZoom.png?nolink}} 
 +{{file:plot:ZoomedIn.png?nolink}} 
 +</WRAP> 
 +</WRAP> 
 + 
 + 
 +===== Plot types ===== 
 + 
 +==== Distribution of detected DCs in Sample ====
  
 <WRAP group> <WRAP group>
Line 14: Line 37:
 Green bars represent the frequency at which DCs appear in metaphase images in the sample. In this example, ~26% of images in the sample contain 1 DC. The Red dashed line represents the theoretical Poisson distribution (probability of a number of independent events occurring in a fixed time interval). Green bars represent the frequency at which DCs appear in metaphase images in the sample. In this example, ~26% of images in the sample contain 1 DC. The Red dashed line represents the theoretical Poisson distribution (probability of a number of independent events occurring in a fixed time interval).
  
-The dicentric cell distribution under full body X or gamma ray radiation complies a Poisson distribution. Dispersion index and Mu test are used to test this compliance. For a Poisson distribution, the dispersion index is one. Mu test higher than 1.96 indicates over-dispersion. Mu test lower than -1.96 means under-dispersion, which is likely to indicate problems in data sampling. The theoretical Poisson distribution with the average number of DCs as Lambda is the result of fitting a Poisson distribution to the actual DC distribution using maximum likelihood estimation. The chi-square goodness of fit is calculated for the Poisson and the actual DC distribution. The result is the p-value of the hypothesis that the DC distribution comes from the Poisson distribution.+The dicentric cell distribution under full body X or gamma ray radiation is expected to form a Poisson distribution. Dispersion index and Mu test are used to test this compliance. For a Poisson distribution, the dispersion index is one. Mu test higher than 1.96 indicates over-dispersion. Mu test lower than -1.96 means under-dispersion, which is likely to indicate problems in data sampling. The theoretical Poisson distribution with the average number of DCs as Lambda is the result of fitting a Poisson distribution to the actual DC distribution using maximum likelihood estimation. The chi-square goodness of fit is calculated for the Poisson and the actual DC distribution. The result is the p-value of the hypothesis that the DC distribution comes from the Poisson distribution. 
 + 
 +Dicentric cell distribution will have only one bin for cells with no DC and the p-value will be 'nan', not-a-number, if no DC is detected in the sample. It might be caused by a sigma value that is too small, too few images in the sample, or a low exposure dose of the sample. 
  
 </WRAP> </WRAP>
Line 22: Line 47:
 </WRAP> </WRAP>
  
-===== Show distribution of filtering stats for sample =====+==== Distribution of filtering stats for sample ====
 Highlight a single sample and click  the {{file:icon:view-statistics.png?nolink&20}} icon to show information for a specific filtering stats. See the [[main:imageselectionmodel|Image selection model]] page for explanations of image filtering/selecting stats. Highlight a single sample and click  the {{file:icon:view-statistics.png?nolink&20}} icon to show information for a specific filtering stats. See the [[main:imageselectionmodel|Image selection model]] page for explanations of image filtering/selecting stats.
  
-=== Number of objects ===+==== Number of objects ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 42: Line 67:
 </WRAP> </WRAP>
  
-=== Mean chromosome length/width ratio ===+==== Mean chromosome length/width ratio ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 59: Line 84:
 </WRAP> </WRAP>
  
-=== Mean candidate density ===+==== Mean candidate density ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 76: Line 101:
 </WRAP> </WRAP>
  
-=== Mean Chromosome finite difference ===+==== Mean Chromosome finite difference ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 92: Line 117:
 </WRAP> </WRAP>
  
-=== Number of segmented objects ===+==== Number of segmented objects ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 108: Line 133:
 </WRAP> </WRAP>
  
-=== Classified object/segmented objects ===+==== Classified object/segmented objects ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 125: Line 150:
 </WRAP> </WRAP>
  
-=== Group bin distance ===+==== Group bin distance ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 142: Line 167:
 </WRAP> </WRAP>
  
-===== Plot calibration curve =====+==== Calibration curve ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
Line 159: Line 184:
 </WRAP> </WRAP>
  
-===== Dose estimation =====+==== Dose estimation ====
 <WRAP group> <WRAP group>
 <WRAP column half> <WRAP column half>
main/plots.txt · Last modified: 2018/02/08 16:25 by bshirley

Page Tools

Donate Powered by PHP Valid HTML5 Valid CSS Driven by DokuWiki