2.1.1.9. rpt_dosi.tmtv

2.1.1.9.1. Classes

TMTV	Compute TMTV Total Metabolic Tumor Volume

2.1.1.9.2. Functions

dilate_mask(itk_image, dilatation_mm)
tmtv_mask_cut_the_head(itk_image, mask, ...)
tmtv_apply_mask(itk_image, np_mask)
tmtv_mask_remove_rois(itk_image, np_mask, roi_list[, ...])
tmtv_mask_keep_rois(itk_image, np_mask, roi_list[, ...])
rois_to_remove_default()
rois_to_keep_default()
is_number(n)
remove_small_areas(itk_mask, minimal_volume_cc[, ...])
find_foci(tmtv, tmtv_mask[, min_size_cm3, ...])
get_label_centroids(foci)

2.1.1.9.3. Module Contents

rpt_dosi.tmtv.dilate_mask(itk_image, dilatation_mm)

rpt_dosi.tmtv.tmtv_mask_cut_the_head(itk_image, mask, skull_filename, margin_mm)

rpt_dosi.tmtv.tmtv_apply_mask(itk_image, np_mask)

rpt_dosi.tmtv.tmtv_mask_remove_rois(itk_image, np_mask, roi_list, roi_folder='', verbose=False)

rpt_dosi.tmtv.tmtv_mask_keep_rois(itk_image, np_mask, roi_list, roi_folder='', verbose=False)

rpt_dosi.tmtv.rois_to_remove_default()

rpt_dosi.tmtv.rois_to_keep_default()

class rpt_dosi.tmtv.TMTV

Compute TMTV Total Metabolic Tumor Volume Consider ITK images as input and output

verbose = True

intensity_threshold = 'auto'

population_mean_liver = None

cut_the_head = False

cut_the_head_margin_mm = 10

cut_the_head_roi_filename = 'rois/skull.nii.gz'

rois_to_remove

rois_to_remove_folder = 'rois'

removed_mask = None

rois_to_keep = []

rois_to_keep_folder = 'rois'

minimal_volume_cc = None

tmtv_mask_np = None

compute_mask(itk_image)

apply_threshold(itk_image, np_mask)

get_removed_rois_mean_value(np_image, removed_mask)

get_gafita2019_threshold(itk_image, population_mean_liver)

rpt_dosi.tmtv.is_number(n)

rpt_dosi.tmtv.remove_small_areas(itk_mask, minimal_volume_cc, keep_binary_mask=True)

rpt_dosi.tmtv.find_foci(tmtv, tmtv_mask, min_size_cm3=1, percentage_threshold=0.001)

rpt_dosi.tmtv.get_label_centroids(foci)