SC-Track
Contents:
sctrack
Contents:
sctrack
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Contents:
sctrack
SCTrack package
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Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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J
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L
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M
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N
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P
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R
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S
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T
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U
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V
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W
A
add_cell() (SCTrack.feature.FeatureExtractor method)
add_child_node() (SCTrack.tracker.Matcher method)
add_exist_time() (SCTrack.base.TreeStatus method)
add_M_count() (SCTrack.base.TreeStatus method)
add_node() (SCTrack.tracker.Tracker method)
(SCTrack.tracker.TrackingTree method)
area (SCTrack.base.Cell property)
(SCTrack.base.Rectangle property)
area() (SCTrack.feature.FeatureExtractor method)
auto_update_last_layer() (SCTrack.tracker.TrackingTree method)
available_range (SCTrack.base.Cell property)
B
bbox (SCTrack.base.Cell property)
bbox() (SCTrack.feature.FeatureExtractor method)
bfs() (SCTrack.reclassification.TreeParser method)
branch_id (SCTrack.base.Cell property)
branch_id_distributor() (SCTrack.tracker.TrackingTree method)
C
calc_similar() (SCTrack.tracker.Matcher method)
calc_sorted_value() (SCTrack.tracker.Matcher method)
calcAreaSimilar() (SCTrack.tracker.Match method)
calcCosDistance() (SCTrack.tracker.Match method)
calcCosSimilar() (SCTrack.tracker.Match method)
calcEuclideanDistance() (SCTrack.tracker.Match method)
calcIoU() (SCTrack.tracker.Match method)
calcIoU_roughly() (SCTrack.tracker.Match method)
Cell (class in SCTrack.base)
cell_id (SCTrack.base.Cell property)
CellNode (class in SCTrack.tracker)
cells (SCTrack.feature.FeatureExtractor property)
CellStatus (class in SCTrack.base)
center (SCTrack.base.Cell property)
(SCTrack.feature.Mask property)
(SCTrack.generate_tracking_stack.Mask property)
change_mitosis_flag() (SCTrack.base.Cell method)
(SCTrack.tracker.TrackingTree method)
check() (SCTrack.tracker.Checker method)
check_ctype_exit() (SCTrack.reclassification.TreeParser static method)
check_ctype_start() (SCTrack.reclassification.TreeParser static method)
check_division_window() (SCTrack.base.TreeStatus method)
check_iou() (SCTrack.tracker.Matcher method)
check_mitosis_start() (SCTrack.reclassification.TreeParser static method)
check_track() (SCTrack.tracker.Tracker method)
Checker (class in SCTrack.tracker)
compareDicSimilar() (SCTrack.tracker.Match method)
compareMcySimilar() (SCTrack.tracker.Match method)
compareShapeSimilar() (SCTrack.tracker.Match method)
contours (SCTrack.base.Cell property)
convert_dtype() (in module SCTrack.prepare)
(in module SCTrack.utils)
(SCTrack.feature.FeatureExtractor method)
coord2counter() (in module SCTrack.generate_tracking_stack)
(SCTrack.feature.FeatureExtractor method)
coordinate2mask() (in module SCTrack.generate_tracking_stack)
(SCTrack.feature.FeatureExtractor method)
cos (SCTrack.base.Vector property)
cosDistance() (SCTrack.base.Vector method)
cosSimilar() (SCTrack.base.Vector method)
csv2mask() (in module SCTrack.generate_tracking_stack)
D
d_long (SCTrack.base.Cell property)
d_short (SCTrack.base.Cell property)
DetectionParser (class in SCTrack.prepare)
draw() (SCTrack.base.Cell method)
(SCTrack.base.Rectangle method)
draw_bbox() (in module SCTrack.prepare)
(SCTrack.tracker.Matcher method)
(SCTrack.tracker.Tracker method)
E
ellipse_points() (SCTrack.feature.FeatureExtractor method)
enter_mitosis() (SCTrack.base.TreeStatus method)
ErrorMatchMitosis
EuclideanDistance() (SCTrack.base.Vector method)
exit_mitosis() (SCTrack.base.TreeStatus method)
exit_mitosis_time (SCTrack.base.TreeStatus property)
extract() (SCTrack.feature.FeatureExtractor method)
extractRoiFromImg() (in module SCTrack.generate_tracking_stack)
F
Feature (class in SCTrack.feature)
feature (SCTrack.base.Cell property)
feature_extract() (in module SCTrack.feature)
FeatureExtractor (class in SCTrack.feature)
find_combinations_objects() (in module SCTrack.reclassification)
G
get_branch_id() (SCTrack.tracker.CellNode method)
get_cell_image() (SCTrack.feature.FeatureExtractor method)
get_cell_line_from_tree() (in module SCTrack.tracker)
get_cell_list() (SCTrack.feature.FeatureExtractor method)
get_child() (SCTrack.reclassification.TreeParser method)
get_children() (SCTrack.tracker.CellNode method)
get_childs() (SCTrack.tracker.TrackingTree method)
get_coords_by_frame_index() (SCTrack.generate_tracking_stack.JsonParser method)
get_coords_by_frame_name() (SCTrack.generate_tracking_stack.JsonParser method)
get_current_tree() (SCTrack.tracker.Tracker method)
get_frame_by_index() (in module SCTrack.feature)
get_frame_name_by_index() (SCTrack.generate_tracking_stack.JsonParser method)
get_frame_names() (SCTrack.prepare.DetectionParser method)
get_lineage_dict() (SCTrack.reclassification.TreeParser method)
get_parent() (SCTrack.tracker.CellNode method)
(SCTrack.tracker.TrackingTree method)
get_region_attr() (SCTrack.prepare.DetectionParser method)
get_regions() (SCTrack.feature.FeatureExtractor method)
get_regions_by_frame() (SCTrack.prepare.DetectionParser method)
get_roi_from_coord() (SCTrack.feature.FeatureExtractor method)
get_roi_from_mask() (SCTrack.feature.FeatureExtractor method)
get_similar_sister() (SCTrack.tracker.Matcher method)
get_stack() (SCTrack.generate_tracking_stack.RefinedParser method)
get_status() (SCTrack.base.TreeStatus method)
(SCTrack.tracker.CellNode method)
get_track_id() (SCTrack.tracker.CellNode method)
get_tree_status() (SCTrack.tracker.CellNode method)
GetAreaByVector() (SCTrack.feature.FeatureExtractor method)
H
handle_duplicate_match() (SCTrack.tracker.Tracker method)
I
id_distributor() (SCTrack.tracker.Tracker method)
identifier (SCTrack.tracker.CellNode property)
imread() (in module SCTrack.feature)
init_flag (SCTrack.base.SingleInstance attribute)
init_tracking_tree() (SCTrack.tracker.Tracker method)
InsertError
is_accurate_matched (SCTrack.base.Cell property)
is_be_matched (SCTrack.base.Cell property)
is_in_division_window() (SCTrack.base.TreeStatus method)
is_mitosis_enter (SCTrack.base.TreeStatus property)
is_mitosis_start() (SCTrack.tracker.Matcher method)
isInclude() (SCTrack.base.Rectangle method)
isIntersect() (SCTrack.base.Rectangle method)
J
json2box() (in module SCTrack.prepare)
JsonParser (class in SCTrack.generate_tracking_stack)
L
last_layer (SCTrack.tracker.TrackingTree property)
last_layer_cell (SCTrack.tracker.TrackingTree property)
link() (in module SCTrack.generate_tracking_stack)
LossMatch (SCTrack.base.MatchStatus attribute)
M
main() (in module SCTrack.sctrack)
Mask (class in SCTrack.feature)
(class in SCTrack.generate_tracking_stack)
mask (SCTrack.feature.Mask property)
(SCTrack.generate_tracking_stack.Mask property)
mask_seq_to_json() (in module SCTrack.utils)
mask_tif_to_json() (in module SCTrack.utils)
mask_to_coords() (in module SCTrack.utils)
mask_to_json() (in module SCTrack.utils)
Match (class in SCTrack.tracker)
match_candidates() (SCTrack.tracker.Matcher method)
match_duplicate_child() (SCTrack.tracker.Matcher method)
match_one() (SCTrack.tracker.Matcher method)
match_similar() (SCTrack.tracker.Matcher method)
match_single_cell() (SCTrack.tracker.Matcher method)
Matched (SCTrack.base.MatchStatus attribute)
Matcher (class in SCTrack.tracker)
MatchFailed
MatchStatus (class in SCTrack.base)
MitosisError
module
SCTrack
SCTrack.base
SCTrack.config
SCTrack.feature
SCTrack.generate_tracking_stack
SCTrack.prepare
SCTrack.reclassification
SCTrack.sctrack
SCTrack.t_error
SCTrack.template
SCTrack.track
SCTrack.tracker
SCTrack.utils
module (SCTrack.base.Vector property)
move() (SCTrack.base.Cell method)
move_speed (SCTrack.base.Cell property)
N
nid (SCTrack.tracker.CellNode property)
NodeExistError
NoneTypeFilter() (in module SCTrack.base)
normalize() (SCTrack.tracker.Match method)
P
parent (SCTrack.base.Cell property)
pares_single_tree() (in module SCTrack.reclassification)
parse_g1_g2() (SCTrack.reclassification.TreeParser method)
parse_id() (SCTrack.generate_tracking_stack.RefinedParser method)
parse_json() (SCTrack.generate_tracking_stack.JsonParser method)
parse_lineage() (SCTrack.reclassification.TreeParser method)
parse_lineage_branch_id() (SCTrack.reclassification.TreeParser method)
parse_lineage_phase() (SCTrack.reclassification.TreeParser method)
parse_mitosis() (SCTrack.reclassification.TreeParser method)
parse_mitosis_error() (SCTrack.reclassification.TreeParser method)
parse_position() (SCTrack.generate_tracking_stack.RefinedParser method)
parse_s() (SCTrack.reclassification.TreeParser method)
paste() (in module SCTrack.reclassification)
polygon_area() (SCTrack.base.Cell static method)
polygon_centroid() (SCTrack.base.Cell static method)
predict_M_len (SCTrack.base.TreeStatus property)
predict_next_position() (SCTrack.tracker.Matcher method)
R
r_long (SCTrack.base.Cell property)
r_short (SCTrack.base.Cell property)
readTif() (in module SCTrack.utils)
record_cell_division_count() (SCTrack.reclassification.TreeParser method)
Rectangle (class in SCTrack.base)
RefinedParser (class in SCTrack.generate_tracking_stack)
region (SCTrack.base.Cell property)
relink_tree() (in module SCTrack.reclassification)
rematch() (SCTrack.tracker.Tracker method)
reset_division_window() (SCTrack.base.TreeStatus method)
reset_M_count() (SCTrack.base.TreeStatus method)
run() (in module SCTrack.reclassification)
run_track() (in module SCTrack.reclassification)
S
SCTrack
module
SCTrack.base
module
SCTrack.config
module
SCTrack.feature
module
SCTrack.generate_tracking_stack
module
SCTrack.prepare
module
SCTrack.reclassification
module
SCTrack.sctrack
module
SCTrack.t_error
module
SCTrack.template
module
SCTrack.track
module
SCTrack.tracker
module
SCTrack.utils
module
search_root_node() (SCTrack.reclassification.TreeParser method)
select_mitosis_cells() (SCTrack.tracker.Matcher method)
select_single_child() (SCTrack.tracker.Matcher method)
set_branch_id() (SCTrack.base.Cell method)
(SCTrack.tracker.CellNode method)
set_cell_id() (SCTrack.base.Cell method)
(SCTrack.reclassification.TreeParser method)
set_cell_image() (SCTrack.feature.FeatureExtractor method)
set_children() (SCTrack.tracker.CellNode method)
set_feature() (SCTrack.base.Cell method)
set_match_status() (SCTrack.base.Cell method)
set_matched_status() (SCTrack.base.TreeStatus method)
set_parent() (SCTrack.tracker.CellNode method)
set_parent_id() (SCTrack.base.Cell method)
set_region() (SCTrack.base.Cell method)
set_status() (SCTrack.base.Cell method)
(SCTrack.tracker.CellNode method)
set_track_id() (SCTrack.base.Cell method)
(SCTrack.tracker.CellNode method)
set_tree_status() (SCTrack.tracker.CellNode method)
show() (SCTrack.feature.FeatureExtractor static method)
SingleInstance (class in SCTrack.base)
smooth_type() (SCTrack.reclassification.TreeParser method)
Stack (class in SCTrack.generate_tracking_stack)
start_track() (in module SCTrack.track)
status (SCTrack.base.Cell property)
(SCTrack.base.TreeStatus property)
STATUS (SCTrack.tracker.CellNode attribute)
StatusError
sub_division_window() (SCTrack.base.TreeStatus method)
T
tif2png() (in module SCTrack.utils)
time_it() (in module SCTrack.utils)
track() (SCTrack.tracker.Tracker method)
track_id (SCTrack.base.Cell property)
track_near_frame() (SCTrack.tracker.Tracker method)
track_near_frame_mult_thread() (SCTrack.tracker.Tracker method)
track_tree_to_json() (SCTrack.tracker.Tracker method)
track_tree_to_mask() (in module SCTrack.reclassification)
track_tree_to_table() (in module SCTrack.reclassification)
track_tree_to_TRA() (in module SCTrack.reclassification)
track_trees_to_json() (in module SCTrack.reclassification)
Tracker (class in SCTrack.tracker)
TrackingTree (class in SCTrack.tracker)
TreeParser (class in SCTrack.reclassification)
TreeStatus (class in SCTrack.base)
U
Unmatched (SCTrack.base.MatchStatus attribute)
update_last_layer() (SCTrack.tracker.TrackingTree method)
update_region() (SCTrack.base.Cell method)
update_speed() (SCTrack.base.Cell method)
(SCTrack.tracker.Tracker static method)
V
Vector (class in SCTrack.base)
vector (SCTrack.base.Cell property)
visualize_single_tree() (SCTrack.tracker.Tracker method)
visualize_to_tif() (SCTrack.tracker.Tracker method)
W
warningFilter() (in module SCTrack.base)