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+ | ====== False positive filters ====== | ||
+ | False positive (FP) filters are a second layer of scrutiny which can be automatically applied to chromosomes determined by ADCI to be dicentric. When a dicentric chromosome meets the threshold for a FP filter, it will no longer be classified as dicentric for the purposes of dose estimation and will have a yellow contour in the [[main: | ||
+ | |||
+ | ===== Issues which may lead to false positives ===== | ||
+ | False positive dicentric chromosomes are assigned to one or more of the following morphological classes: | ||
+ | - Sister chromatid separation (SCS) | ||
+ | - Chromosome fragmentation | ||
+ | - Chromosome overlap | ||
+ | - Noisy contour | ||
+ | - Cellular debris | ||
+ | - Machine learning error | ||
+ | |||
+ | FP filters target one of more of these classes. | ||
+ | |||
+ | ===== Change active false positive filters ===== | ||
+ | <WRAP group> | ||
+ | <WRAP column half> | ||
+ | To open the FP filter selection dialog, click “Settings” in the menu bar at the top of the software window and select “Change FP Filters”. The dialog appearing on the right side of the screen will appear. A checkmark beside a filter indicates it is active. | ||
+ | </ | ||
+ | <WRAP column half> | ||
+ | {{file: | ||
+ | </ | ||
+ | </ | ||
+ | |||
+ | ===== Description of false positive filters ===== | ||
+ | |||
+ | - **Chromosome Area** | ||
+ | * __Targets__\\ Small acrocentric chromosomes (commonly displaying SCS) and chromosome fragments. | ||
+ | * __Definition__\\ //A(c)// denotes the pixel area occupied by chromosome //c// (see Fig 3B). //c*// was classified as FP if // | ||
+ | - **Chromosome Maximum Width** | ||
+ | * __Targets__\\ SCS and chromosome fragments. | ||
+ | * __Definition__\\ // | ||
+ | - **Chromosome Centromere Width** | ||
+ | * __Targets__\\ SCS and chromosome fragments. | ||
+ | * __Definition__\\ // | ||
+ | - **Chromosome Oblong Index** | ||
+ | * __Targets__\\ Acrocentric chromosomes with SCS and some cases of overlapping chromosomes. | ||
+ | * __Definition__\\ //S(c)// denotes the pair of side lengths of the minimum bounding rectangle enclosing the contour of chromosome //c// (see Fig. 3D). //c*// was classified as FP if //1 − min(S(c*))/ | ||
+ | - **Intercandidate Contour Symmetry** | ||
+ | * __Targets__\\ SCS and some cases of overlapping chromosomes. | ||
+ | * __Definition__\\ // | ||
+ | - **Intercandidate Concavity Index** | ||
+ | * __Targets__\\ Prometaphase chromosomes. | ||
+ | * __Definition__\\ //W’// denotes the first derivative of the width profile between the top 2 centromere candidates, // | ||
+ | |||
+ | ===== Decipher FP Flag value ===== | ||
+ | When a [[main: | ||
+ | |||
+ | <WRAP tip> | ||
+ | These calculations are unnecessary if the goal is simply to determine which FP filters are active while ADCI is running. Active filters are displayed in the " | ||
+ | </ | ||
+ | |||
+ | <WRAP group> | ||
+ | <WRAP column half> | ||
+ | Many online tools exist to convert a decimal to binary such as this [[http:// | ||
+ | |||
+ | In this example, a FP Flag of 78 was shown after highlighting a [[main: | ||
+ | |||
+ | 8**7**65**432**1 - Position. Corresponds to the list of filters directly below.\\ | ||
+ | 0**1**00**111**0 - Binary digits. | ||
+ | |||
+ | The 8 bits of interest are as follows: | ||
+ | - Empty (There is no filter at this position, the binary digit will always be 0) | ||
+ | - Chromosome Area | ||
+ | - Chromosome Maximum Width | ||
+ | - Chromosome Centromere Width | ||
+ | - Intercandidate Contour Symmetry | ||
+ | - Chromosome Oblong Index | ||
+ | - Intercandidate Concavity Index | ||
+ | - Empty (There is no filter at this position, the binary digit will always be 0) | ||
+ | |||
+ | </ | ||
+ | <WRAP column half> | ||
+ | {{file: | ||
+ | </ | ||
+ | </ | ||
+ | |||
+ | |||