TED: A Tolerant Edit Distance for Segmentation Evaluation
This addresses the need for more practical segmentation evaluation metrics in fields like medical imaging, though it is incremental as it builds on existing edit distance concepts.
The paper tackles the problem of evaluating segmentation accuracy by introducing Tolerant Edit Distance (TED), a novel error measure that ignores tolerable errors like small boundary shifts and estimates manual correction time, demonstrating its capability on 3D neuron segmentation to count topological errors while ignoring small shifts.
In this paper, we present a novel error measure to compare a segmentation against ground truth. This measure, which we call Tolerant Edit Distance (TED), is motivated by two observations: (1) Some errors, like small boundary shifts, are tolerable in practice. Which errors are tolerable is application dependent and should be a parameter of the measure. (2) Non-tolerable errors have to be corrected manually. The time needed to do so should be reflected by the error measure. Using integer linear programming, the TED finds the minimal weighted sum of split and merge errors exceeding a given tolerance criterion, and thus provides a time-to-fix estimate. In contrast to commonly used measures like Rand index or variation of information, the TED (1) does not count small, but tolerable, differences, (2) provides intuitive numbers, (3) gives a time-to-fix estimate, and (4) can localize and classify the type of errors. By supporting both isotropic and anisotropic volumes and having a flexible tolerance criterion, the TED can be adapted to different requirements. On example segmentations for 3D neuron segmentation, we demonstrate that the TED is capable of counting topological errors, while ignoring small boundary shifts.