Image processing pipelines in Image Analyst MKII
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Video or image export two channels with LOCAL background subtraction

Parameters:
Name # Type Description
Channel Number #1 1 integer Channel number associated with the image, as appears in the Multi Dimensional Open Dialog. Use Edit/Rename to view or change channel number.
Channel Number #2 2 integer Channel number associated with the image, as appears in the Multi Dimensional Open Dialog. Use Edit/Rename to view or change channel number.
Number of tiles in x 3 integer The image consists of this number of equal sized tiles in x dimension.
Number of tiles in y 4 integer The image consists of this number of equal sized tiles in y dimension.
Largest object size (for background removal, pixels times number of tiles) 5 real Size of the object to be passed by the filtering. The pixel size must be multiplied by the number if tiles (in x or y). Objects larger than this will be removed as background. Cut on of the band pass Butterworth filter.
Channel #1 Color (Look Up Table) 6 string Look Up Table: "Grayscale", "Red", "Green", "Blue", "Pseudocolor", "Intensity Gated Pseudocolor", "Fire", "ROI color", "Off"
Channel #2 Color (Look Up Table) 7 string Look Up Table: "Grayscale", "Red", "Green", "Blue", "Pseudocolor", "Intensity Gated Pseudocolor", "Fire", "ROI color", "Off"
Scaling, Min percentile 8 real This percentile of the image histogram sets the intensity value where the minimum of the Look Up Table (LUT) is scaled. Use -1 to override this with fixed value set below at "Min value".
Scaling, Max percentile 9 real This percentile of the image histogram sets the intensity value where the maximum of the Look Up Table (LUT) is scaled. Use -1 to override this with fixed value set below at "Max value".
Show time stamp 10 boolean Turns on time stamps (set font in the Preferences Dialog/Misc tab).
Time stamp format 11 string Time will appear like this: "0 s", "0.0 s", "0.00 s", "0.000 s", "0000 ms", "00'00"", "00'00"00", "00h00min"
Export Filename 12 string
Video or Image Format 13 string Available formats: "BMPPadded", "BMP", "AVI", "JPG", "JPGPadded"
Description:
This pipeline removes inhomogeneity of background with high pass filtering, scales the image with the Look Up Table (LUT) of choice, applies time stamp and exports in the format of choice. The tiled high pass filter can efficiently remove pattern originating from tiled imaging using wide field microscopy.
Set time stamp font in the Preferences Dialog/Misc tab.
Set video or jpg compression in the Preferences Dialog/Export tab. Note: uncheck ‘Show compression dialog’ for automated processing of multiple positions.
Note: if using x264vfw, please check Zero Latency in its configuration panel.
Note: some video formats require image width divisible by 4 and height divisible by 2.