livecellx.core.SingleCellTrajectory

class livecellx.core.SingleCellTrajectory(track_id=None, timeframe_to_single_cell=None, img_dataset=None, mask_dataset=None, extra_datasets=None, mother_trajectories=None, daughter_trajectories=None, meta=None)

Single cell trajectory containing trajectory information for one single cell at all timeframes.

Methods

add_daughter(daughter_sct)
add_mother(mother_sct)
add_nonoverlapping_sct(other_sct)	add the other sct to this sct, but only add the non-overlapping single cells
add_sc(timeframe, cell)
add_single_cell(timeframe, cell)
compute_features(feature_key, func)	_summary_
copy()
get_all_scs()	rtype List[SingleCellStatic]
get_img(timeframe)
get_mask(timeframe)
get_sc_bboxes()
get_sc_feature_table()
get_scs_napari_shapes([bbox, ...])
get_single_cell(timeframe)	rtype SingleCellStatic
get_sorted_scs()	rtype List[SingleCellStatic]
get_time_span()
get_time_span_length()
get_timeframe_span()
get_timeframe_span_length()
inflate_other_trajectories(...)	inflate the other trajectories in this trajectory's mother and daughter trajectories
load_from_json_dict(json_dict[, ...])
load_from_json_file(path)
next_time(time)	return the next time in this trajectory after the given time.
num_scs()	rtype int
pop_single_cell(timeframe)
remove_daughter(daughter_sct)
remove_mother(mother_sct)
split(split_time)	split this trajectory into two trajectories: [start, split_time), [split_time, end], at the given split time
subsct(min_time, max_time[, track_id, ...])	return a subtrajectory of this trajectory, with timeframes between min_time and max_time.
to_json_dict([dataset_json_dir])
update_meta_trajectories()
write_json([path, dataset_json_dir])

Attributes

META_DAUGHTER_IDS
META_MOTHER_IDS