pcnaDeep

pcnaDeep.predictor

class pcnaDeep.evaluate.pcna_ctcEvaluator(root, dt_id, digit_num=3, t_base=0, path_ctc_software=None, init_dir=True)[source]

__init__(root, dt_id, digit_num=3, t_base=0, path_ctc_software=None, init_dir=True)[source]: Evaluation of tracking output

set_evSoft(path_ctc_software)[source]

Set evaluation software path

Parameters:: path_ctc_software (str) – path to CTC evaluation software

generate_raw(stack)[source]

Save raw images by slice

generate_ctc(mask, track, mode='RES')[source]

Generate standard format for Cell Tracking Challenge Evaluation, for RES or GT.

Parameters:

init_ctc_dir()[source]

Initialize Cell Tracking Challenge directory

An example directory

|-- 0001
    |-- 0001_RES
    |-- 0001_GT
        |-- SEG
        |-- TRA

evaluate()[source]: Call CTC evaluation software to run ((Unix) Linux/Mac only)