Premade.

A filter used in wholebrain functions.

Usage

filter

Format

A list of parameters to filter features of interest in an image

alim

price, in US dollars

threshold.range

weight of the diamond, in carats

eccentricity

eccentricity (elongation) of contours sets how round you want cell bodies to be. Default is 500 and smaller values equal to more round.

Max

Maximum value to display in the 8-bit rendered (sets sort of brightness contrast)

Min

Minimum value to display in the 8-bit rendered (sets sort of brightness contrast)

brain.threshold

the exact value where you want to start segmeting the brain outline in autofluorescence

resize

resize parameter to match the atlas to your pixel resolution, should be between 0.03 and 0.2 for most applications.

blur

blur parameter that sets the smoothness of the tissue outline, if magaded or jagged edges increase. Using a value fo 4 is usually recommended.

downsample

downsample, default is set to 0.25 and images with a size of 15000 x 8000 pixels can then usually be run smoothly

...