``solid-blob extract'' - extract bright solid blobs

VFX name:

iBlobExtract

IMPROMPTU Equivalent:

Solid_Blob_Extraction

purpose:

This is the same as ``LV_extract'' except this function has more parameters. In particular, more parameters exist for autothresholding.

The papillary-muscle probe can be used for filling sagittal-plane gaps that extend over up to 7 slices (the probe does a 3x3x7 morphological closing).

Like ``LV extract'', this is an extremely slow function. Use it in the background mode.

input:

An 8-bit volume.

output:

An 8-bit volume. Also, a file called ``invol.size'', which gives the sizes in voxels of the extracted regions; ``invol'' is the name of the input volume. If no input volume name is specified, a file called ``sizeXXXXXX'' is made instead, where XXXXXX is a computer-generated code like g56038.

parameters:

Default parameters menu is

min_isthmus_diam = 7
pap_muscle_probe = yes
num_obj_to_save = 1
clear_up = Yes
use_maxh_filter = Yes
thresh_scheme = Auto_thresholding
*****Auto-thresholding Parameters*****
mode = restrict_rise
top-level parameters:
low_tol_thresh = 120
cue_slice_num = 1
slices_per_group = 2
max_intergroup_change = 30
max_thresh_rise = 5
aoi_analysis = No
aoi_expansion_factor = 100
histogram-analysis parameters:
min_hist_peak_sep = 30
min_hist_peak_area = 20
abs_min_peak_sep = 16
****Manual-thresholding Parameters****
FIRST threshold:
first_thresh = 0
first_begin_slice = 0
SECOND threshold:
second_thresh = 0
second_begin_ slice = 0

comments:

1.

See comments under ``LV_extract''.