SARFIA (Semi-Automated Routines for Functional Image Analysis)

Image thresholding based on the Laplace operator, extraction of z-Data from a stack.

thresholding_demo.m interactively loads an image stack, performs thresholding based on the Laplace operator and extracts time-series information from the image stack based on a binary mask provided by the thresholding operation.

mthresh.m performs thresholding based on the Laplace operator.

load3d.m loads an image stack into a 3D array.

zstack.m retrieves z information from a 3D array, based on a binary mask.

These functions provide the core functionality of SARFIA, which was originally developed for Igor Pro.