Retrieve Parent-Child data

Hi Folks, 

I use the first measurement as ROIs and then have a second from which I just have to retrieve the RgnPerArea... 

So I have two classes, the one with the parents (from which I need length, width....) and the second with the children. 

I can retrieve the values to the parents well by this code...
Public Function GetClassDataT() As SimpleScript
        GetClassDataT = New SimpleScript

        Dim im As McImage=ThisApplication.ActiveImage
        If im Is Nothing Then Exit Function 'no image
        Dim md As McMMData=im.MeasurementsData
        'If md.Count=0 Then Exit Function'no data
        Dim classes As MMClasses=McMeasurements.ThisAddin.Options.Classes
        Dim nClasses As Integer=classes.Items.Count



With Automate.ScriptingCommands.CodeCommand(GetClassDataT)
If .Run() Then


For Each cl As MMClassDescr In classes.Items.Values


    For Each sf As McMMSubFeature In md.SubFeatures




    If sf.Value(eMeasures.AnyClass) = 1 Then



                If sf.Value(eMeasures.AnyClass)=cl.Value Then TWidth = sf.value(eMeasures.RgnWidth)
                If sf.Value(eMeasures.AnyClass)=cl.Value Then TLength= sf.value(eMeasures.RgnLength)
                If sf.Value(eMeasures.AnyClass)=cl.Value Then SumTSize = SumTSize + sf.value(eMeasures.RgnArea)

end if end with



Best Answer

  • Accepted Answer
    dhavas,

    You could use Parent and PercentAreaParent measures in a macro to get the sum, like this

        Public Sub ParentMeasures
            Dim dict As New System.Collections.Generic.Dictionary(Of String,Double)
            For Each sf As McMMSubFeature In ThisApplication.ActiveImage.MeasurementsData.Subfeatures
                Dim sParent As String=sf.Value(eMeasures.AnyParentName)
                Dim v As Double=sf.Value(eMeasures.RgnPercentParentArea)
                If Not dict.ContainsKey(sParent) Then
                    dict.Add(sParent,v)
                Else
                    dict(sParent)=dict(sParent)+v'calculate sum
                End If
             Next
             For Each kv As System.Collections.Generic.KeyValuePair(Of String,Double) In dict
                Debug.Print (String.Format("Parent {0} - Percent Area Parent Sum = {1}",kv.Key,kv.Value))
             Next
        End Sub

    The easier way is to Classify by Group (after grouping by Parent) , features of different parents will be assigned to different classes



    and then collect data to Data Collector, Measurements Class Stats table, Percent Area Parent Sum will give you the value you need



    Yuri

Answers

  • Sorry was not complete... 
    again

    How can I get the values of RngPerArea o the children now for each of the parents

    Public Function GetClassDataT() As SimpleScript
            GetClassDataT = New SimpleScript
    
            Dim im As McImage=ThisApplication.ActiveImage
            If im Is Nothing Then Exit Function 'no image
            Dim md As McMMData=im.MeasurementsData
            'If md.Count=0 Then Exit Function'no data
            Dim classes As MMClasses=McMeasurements.ThisAddin.Options.Classes
            Dim nClasses As Integer=classes.Items.Count
    
    dim TWidth, TLength, SumTSize
    
    With Automate.ScriptingCommands.CodeCommand(GetClassDataT)
    If .Run() Then
    
    
    For Each cl As MMClassDescr In classes.Items.Values
    
    
        For Each sf As McMMSubFeature In md.SubFeatures
    
    
    
    'each parent in class 1
        If sf.Value(eMeasures.AnyClass) = 1 Then
    
    
    
                    If sf.Value(eMeasures.AnyClass)=cl.Value Then TWidth = sf.value(eMeasures.RgnWidth)
                    If sf.Value(eMeasures.AnyClass)=cl.Value Then TLength= sf.value(eMeasures.RgnLength)
                    If sf.Value(eMeasures.AnyClass)=cl.Value Then SumTSize = SumTSize + sf.value(eMeasures.RgnArea)
    
    'XXXXXXXXXXX    HERE I'D NEED THE percent area or area of the children for each parent. 
    ' in the end I need the % area of the Size of the parent covered by labeling within the parent's outlines
    
    
         end if
    next
    next
    
    end if 
    end with
    
    'MANY THANKS
  • dhavas,

    There is an easier way to measure Percent Area Parent, which is mentioned in some previous topics:
    http://forums.mediacy.com/discussion/comment/1113#Comment_1113 
    http://forums.mediacy.com/discussion/comment/1155#Comment_1155 

    In short: you just create your parent areas as Measurements (not ROIs), manually or using automatic segmentation, and then Activate "Preserve existing data", "Use as Outlines" and Count objects inside. Then check "Percent Area Parent" statistics, you can optionally group the table "By Parent". Here is the screenshot:



    Yuri
  • Hi Yuri, 

    This is exactly what I do... 

    I need the code to retrieve the data, since I need to calculate with them. 

    So how do I get the statistics of the RngPercentParentArea (I found this one :-)) for each parent separately. 

    (I'm measuring tumors and  cellular content within). 

    My problem is that when I retrieve the single values, they are not sorted to parent. So if I get the class data of the second class (the children) then they are not easy to allocate to the parent so that I can sum them up. 

    I'm sure there is a relative simple way, but I don't come on it...

    Cheers

    Dan


  • 2018-01-24-131834

    Dhavas --

    There may be a more sophisticated way to do this but I would use MASKS and HOLE AREA and HOLES NUMBER.

    A path through this is shown below where:

    AA is the ORIGINAL IMAGE with the ROIs and the AREAS found within the ROIs
    BB is the ORIGINAL IMAGE with the ROIs converted to MEASUREMENTS using the FEATURE MANAGER
    CC is the ORIGINAL IMAGE with the AREAS and no ROIs
    DD is the MASK of BB
    EE is the MASK of CC (plus a division by 2 to change 255 to 128)
    FF is DD - EE plus a MONO THRESHOLD of 130 to 255 and a COUNT.

    I think the information you want is now available in the DATA TABLE.

    The only issue I see is if one of your AREAS is at the boundary of the ROI.  I think you can deal with this though by maybe DILATING the DD MASK by a pixel or two or by eroding the EE MASK by a pixel or two.

    I hope this information is helpful.

    -- Matt



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