Signal Extraction (signal_extraction_para)

Regions of interest are defined as follows.

_images/para_signal_extraction.png

  • cytoring_region_dist (1x2 integer array) — Distances (in pixels) between the cytoplasmic ring and the ellipse contour.

    These two values refer to the inner and outer boundaries of the cytoplasmic ring, respectively.

  • nuc_region_dist (integer) — Distances (in pixels) between the nucleus and the ellipse contour.

  • background_dist (integer) — Distances (in pixels) between the outermost point of cell membrane and the ellipse contour.

  • intensity_percentile (1xn double array) — Percentile of intensities (0 to 100) to measure.

    Each element defines a percentile to measure.

  • outlier_percentile (double | advanced parameter) — Outlier percentiles (0 to 50) of intensities.

    Upper and lower X% intensities of a region will be discarded from signal calculation.