Matt:LabNotes/2014-2-19: Difference between revisions
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>Mzcai mNo edit summary |
>Mzcai m (→Results) |
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===Results=== | ===Results=== | ||
Pos1: [[File:NCIH1975_Pos1_Complete.png | 450px]] | Pos1: [[File:NCIH1975_Pos1_Complete.png | 450px]]<br> | ||
Pos2: [[File:NCIH1975_Pos2_Complete.png | 450px]] | Pos2: [[File:NCIH1975_Pos2_Complete.png | 450px]]<br> | ||
Pos3: [[File:NCIH1975_Pos3_Complete.png | 450px]] | Pos3: [[File:NCIH1975_Pos3_Complete.png | 450px]]<br> |
Revision as of 07:01, 20 February 2014
Modifying BF Confocal Images
- Right now the BF image is mostly gray and doesn't look good (is too bright) when overlayed onto rolony images with ImageJ
- Going to use GIMP to modify BF image
Procedure
- Open BF image in GIMP
- Adjust (increase) Contrast to improve visibility of cell edges
- Can also play with brightness
- Blur/Erode
- Edge-detect
- Thresholding
- Gaussian Blur with radius 3
- Edge Detect Difference of Guardians Radius 1: 1.0 Radius 2: 16.0
- Don't Invert
- Threshold so as much black as possible without losing any cells
- Brightness: -83
- Open secondary rolony polished bw images as layers
- Change mode to RGB, switch black bg to alpha (transparent), and add color to each layer of rolonies
- Flatten image and save
Results
Pos1: File:NCIH1975 Pos1 Complete.png
Pos2: File:NCIH1975 Pos2 Complete.png
Pos3: File:NCIH1975 Pos3 Complete.png