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Update README_RGB.md
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oh231 authored Jun 27, 2024
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Expand Up @@ -67,31 +67,43 @@ These image files visually represent morphological measurements on the vegetatio



- Gray (pixels): vegetation pixels segmented
- Green (Polyline): Smallest enclosing rectangle of the vegetation segments
- Blue (Polyline): Convex hull (smallest enclosing polygon) of the vegetation segments
- Red (Pollyline): Pixel-wise boundary of vegetation segments
- Cyan (point): Center of mass coordinate
- `Gray (pixels)`: vegetation pixels segmented
- `Green (Polyline)`: Smallest enclosing rectangle of the vegetation segments
- `Blue (Polyline)`: Convex hull (smallest enclosing polygon) of the vegetation segments
- `Red (Pollyline)`: Pixel-wise boundary of vegetation segments
- `Cyan (point)`: Center of mass coordinate



### How to Read Information in spreadsheet files (.xlsx for master file, csv file for individual measurements)

The spreadsheets contains various phenotypic measurements derived from the RGB images. Here's a breakdown of the column headers:

- `frame_nr`: Frame number from 0-11 for side view data
- `Angle`: Side view angle where the vegetation is most dispersed
- `Width`, `Height`: Dimensions of the green box in the corresponding MES file
- `Surface`: Area of the vegetation measured by the red polygon (Section 2)
- `Convex hull`: Area of the convex hull measured by the blue polygon
- `Roundedness`: Roundness of the red polygon (calculation method unclear)
- `Center_of_mass_distance`: Unclear meaning
- `Center_of_mass_x`, `Center_of_mass_y`: Coordinates of the center of mass point
- `Hue, Saturation`, Intensity: Average values for these color properties in the image
- `Fluorescence`: Average fluorescence intensity
- `H###`, `S##`, `V##`: Frequency of pixels with specific hue (###: 0-359), saturation (##: 0-99), and intensity (##: 0-99) values
- `F##`: Frequency of pixels with a specific fluorescence value (##: 0-99)
- `View`:
- `frame_nr`
- Frame number from 0-11 for side view data
- `Angle`
- Side view angle where the vegetation is most dispersed
- `Width`, `Height`
- Dimensions of the green box in the corresponding MES file
- `Surface`
- Area of the vegetation measured by the red polygon (Section 2)
- `Convex hull`
- Area of the convex hull measured by the blue polygon
- `Roundedness`
- Roundness of the red polygon (calculation method unclear)
- `Center_of_mass_distance`
- Unclear meaning
- `Center_of_mass_x`, `Center_of_mass_y`
- Coordinates of the center of mass point
- `Hue, Saturation`, `Intensity`
- Average values for these color properties in the image
- `Fluorescence`
- Average fluorescence intensity
- `H###`, `S##`, `V##`
- Frequency of pixels with specific hue (###: 0-359), saturation (##: 0-99), and intensity (##: 0-99) values
- `F##`
- Frequency of pixels with a specific fluorescence value (##: 0-99)
- `View`
- TOP FRAME: Ignore this row
- TOP AVG: Data from the top view
- Side{Bottom, Small, Top, Full} FRAME 0 to 11: Data from various side view angles (0, 30, ..., 330 degrees)
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