baby.preprocessing

Functions

flattener_norm_func(flattener)
logical_norm(img, info)
raw_norm(img, info)	Keep raw values but scale non-float images to [0, 1]
robust_norm(img, info[, q_outliers])	Robust normalisation of intensity to [-1,1]
seg_norm(img, info)
segoutline_flattening(fill_stack, info)	Returns a stack of images in order: edge: edges for all cells flattened into a single layer filled: filled area for all cells flattened into a single layer interiors: filled area excluding the edges overlap: regions occupied by more than one cell budring: edges located between mother and bud centres bud: buds that are are smaller than a fractional threshold of the mother
standard_norm(img, info)	Normalise intensity to [0, 1]

Classes

CellGroup([lower, upper, budonly, focus])	Defines a cell group for creation of SegmentationFlattening targets
PredTarget(name, group, prop[, nerode, ...])	Defines a target for SegmentationFlattening objects
SegmentationFlattening([filename])	Methods

Exceptions

UnrecognisedProp