Bacteria Density Analyzer
Contents:
Introduction to “Bacteria Density Analyzer”
Bacteria Density Analyzer: Abstract
Bacteria Density Analyzer: User’s guide
Bacteria Density Analyzer
Index
Index
A
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B
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C
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E
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F
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G
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I
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K
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L
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M
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P
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Q
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R
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S
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U
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W
A
add_measurement_channel() (bacteria_density.bd_worker.BacteriaDensityWorker method)
add_region() (bacteria_density.bd_worker.BacteriaDensityWorker method)
are_measures_generated() (bacteria_density.bd_worker.BacteriaDensityWorker method)
are_medial_paths_generated() (bacteria_density.bd_worker.BacteriaDensityWorker method)
are_regions_exported() (bacteria_density.bd_worker.BacteriaDensityWorker method)
are_skeletons_generated() (bacteria_density.bd_worker.BacteriaDensityWorker method)
as_polygon() (in module bacteria_density.utils)
avg_in_bins() (in module bacteria_density.utils)
B
bacteria_density
module
bacteria_density.bd_worker
module
bacteria_density.graph
module
bacteria_density.measure
module
bacteria_density.plots
module
bacteria_density.process
module
bacteria_density.qt_workers
module
bacteria_density.utils
module
BacteriaDensityWorker (class in bacteria_density.bd_worker)
bbox_to_polygon() (in module bacteria_density.utils)
bbox_to_str() (in module bacteria_density.utils)
C
chunks_as_json() (bacteria_density.bd_worker.BacteriaDensityWorker method)
chunks_from_json() (bacteria_density.bd_worker.BacteriaDensityWorker method)
clr_to_str() (in module bacteria_density.utils)
control_affectations() (in module bacteria_density.process)
cumulative_distance() (in module bacteria_density.measure)
E
error() (bacteria_density.bd_worker.BacteriaDensityWorker method)
export_processed_set() (bacteria_density.bd_worker.BacteriaDensityWorker method)
export_regions() (bacteria_density.bd_worker.BacteriaDensityWorker method)
F
find_next_bbox() (in module bacteria_density.graph)
find_root() (in module bacteria_density.graph)
finished (bacteria_density.qt_workers.QtExportCrops attribute)
(bacteria_density.qt_workers.QtMakeMasks attribute)
(bacteria_density.qt_workers.QtMeasure attribute)
(bacteria_density.qt_workers.QtMedialAxis attribute)
(bacteria_density.qt_workers.QtPlot attribute)
from_polygon() (in module bacteria_density.utils)
G
get_binned_distances() (in module bacteria_density.utils)
get_execution_order() (in module bacteria_density.measure)
get_functions() (in module bacteria_density.measure)
get_leaves() (in module bacteria_density.graph)
get_measurement_channels() (bacteria_density.bd_worker.BacteriaDensityWorker method)
get_metrics_by_order() (in module bacteria_density.measure)
get_processed_metrics() (bacteria_density.bd_worker.BacteriaDensityWorker method)
get_rank() (bacteria_density.bd_worker.BacteriaDensityWorker method)
get_segmentation_channel() (bacteria_density.bd_worker.BacteriaDensityWorker method)
I
info() (bacteria_density.bd_worker.BacteriaDensityWorker method)
integrated_intensity() (in module bacteria_density.measure)
integrated_volume() (in module bacteria_density.measure)
K
keep_largest() (in module bacteria_density.process)
L
launch_analysis_workflow() (in module bacteria_density.bd_worker)
launch_recover_workflow() (in module bacteria_density.bd_worker)
launch_synthetic_workflow() (in module bacteria_density.bd_worker)
local_density() (in module bacteria_density.measure)
local_width() (in module bacteria_density.measure)
longest_path_from() (in module bacteria_density.graph)
M
main() (in module bacteria_density.plots)
make_affectations() (in module bacteria_density.process)
make_crop() (in module bacteria_density.utils)
make_mask_and_skeleton() (bacteria_density.bd_worker.BacteriaDensityWorker method)
make_measures() (bacteria_density.bd_worker.BacteriaDensityWorker method)
make_medial_path() (bacteria_density.bd_worker.BacteriaDensityWorker method)
make_metric_control() (in module bacteria_density.process)
make_plots() (bacteria_density.bd_worker.BacteriaDensityWorker method)
merge_measures() (bacteria_density.bd_worker.BacteriaDensityWorker method)
module
bacteria_density
bacteria_density.bd_worker
bacteria_density.graph
bacteria_density.measure
bacteria_density.plots
bacteria_density.process
bacteria_density.qt_workers
bacteria_density.utils
P
path_as_img() (in module bacteria_density.graph)
polygon_to_bbox() (in module bacteria_density.utils)
polygon_to_mask() (in module bacteria_density.utils)
Q
QtExportCrops (class in bacteria_density.qt_workers)
QtMakeMasks (class in bacteria_density.qt_workers)
QtMeasure (class in bacteria_density.qt_workers)
QtMedialAxis (class in bacteria_density.qt_workers)
QtPlot (class in bacteria_density.qt_workers)
R
random_id() (in module bacteria_density.utils)
recover() (bacteria_density.bd_worker.BacteriaDensityWorker method)
recover_calibration() (bacteria_density.bd_worker.BacteriaDensityWorker method)
recover_images() (bacteria_density.bd_worker.BacteriaDensityWorker method)
recover_metrics() (bacteria_density.bd_worker.BacteriaDensityWorker method)
recover_regions() (bacteria_density.bd_worker.BacteriaDensityWorker method)
reset_folder() (in module bacteria_density.utils)
run() (bacteria_density.qt_workers.QtExportCrops method)
(bacteria_density.qt_workers.QtMakeMasks method)
(bacteria_density.qt_workers.QtMeasure method)
(bacteria_density.qt_workers.QtMedialAxis method)
(bacteria_density.qt_workers.QtPlot method)
run1() (in module bacteria_density.graph)
S
save_measurement_channels() (bacteria_density.bd_worker.BacteriaDensityWorker method)
save_metrics() (bacteria_density.bd_worker.BacteriaDensityWorker method)
save_original() (bacteria_density.bd_worker.BacteriaDensityWorker method)
save_plot() (in module bacteria_density.plots)
save_regions() (bacteria_density.bd_worker.BacteriaDensityWorker method)
save_segmentation_ch() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_binning_distance() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_calibration() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_merge_measures() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_segmentation_channel() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_starting_hint() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_threshold_factor() (bacteria_density.bd_worker.BacteriaDensityWorker method)
set_working_dir() (bacteria_density.bd_worker.BacteriaDensityWorker method)
skeleton_to_undirected_graph() (in module bacteria_density.graph)
state_as_json() (bacteria_density.bd_worker.BacteriaDensityWorker method)
str_to_clr() (in module bacteria_density.utils)
sum_in_bins() (in module bacteria_density.utils)
U
use_metric() (bacteria_density.bd_worker.BacteriaDensityWorker method)
W
warning() (bacteria_density.bd_worker.BacteriaDensityWorker method)