Feature Extraction¶

class brainlit.feature_extraction.NeighborhoodFeatures(url: str, radius: List[int] = [1, 1, 1], offset: List[int] = [15, 15, 15], segment_url: Optional[str] = None)[source]¶

Computes features based off neighborhood properties.

Parameters

url -- Precompued path either to a file URI or url URI of image data.
radius -- The radius around each point considered a neighborhood, in each dimension. If radius is [x,y,z], the neighborhood will be a [2x+1, 2y+1, 2z+1] volume centered at the point of interest. Defaults to [1, 1, 1].
offset -- Added to the coordinates of a positive sample to generate a negative sample. Defaults to [15, 15, 15].
segment_url -- Precompued path either to a file URI or url URI of segmentation data.

url¶: CloudVolumePrecomputedPath to image data.

size¶: A size hyperparameter. In Neighborhoods, this is the radius.

offset¶: Added to the coordinates of a positive sample to generate a negative sample.

download_time¶: Tracks time taken to download the data.

conversion_time¶: Tracks time taken to convert data to features.

write_time¶: Tracks time taken to write features to files.

segment_url¶: CloudVolumePrecomputedPath to segmentation data.