Module evolution 

BET surface evolution algorithm

Based on: Smith, S.M. (2002) “Fast robust automated brain extraction” Human Brain Mapping, 17(3):143-155

Aligned with FSL-BET2 implementation.

Structs

BetParameters 🔒

Brain parameters struct (like FSL’s bet_parameters)

BetParams

Run BET brain extraction

Constants

MAX_PASSES 🔒

Maximum number of recovery passes (matches FSL-BET2)

SELF_INTERSECTION_THRESHOLD 🔒

Self-intersection threshold (matches FSL-BET2)

Functions

estimate_brain_parameters 🔒

Estimate brain parameters from the image (matches FSL-BET2’s adjust_initial_mesh)

evolution_pass 🔒

Run a single pass of surface evolution

fill_holes 🔒

Simple hole filling

percentile 🔒

Compute percentile of sorted array

run_bet

Returns

run_bet_with_progress

Run BET brain extraction with progress callback

sample_intensities_fsl 🔒

Sample min/max intensities along inward normal (matches FSL-BET2’s step_of_computation)

sample_intensity 🔒

Trilinear interpolation

surface_to_mask 🔒

Convert surface mesh to binary mask using flood fill