# DynamicNuclearNet -- Tracking Data

The tracking portion of the DynamicNuclearDataset includes all data used for tracking.

The following files are included:
- `train.trk`
    - Dimensions: (91, 71, 584, 600, 1) BTYXC
    - Tracks: 11,039
    - Divisions: 1,608
- `val.trk`
    - Dimensions: (27, 71, 584, 600, 1) BTYXC
    - Tracks: 2,923
    - Divisions: 444
- `test.trk`
    - Dimensions: (12, 71, 584, 600, 1) BTYXC
    - Tracks: 1,213
    - Divisions: 178
- `data-source.npz`
    - A record of the source of each batch divided into one array per data split

Each `trks` file contains three components:
- X: raw fluorescent nuclear data
- y: nuclear segmentation masks
- lineages: lineage records including the cell id, frames present and division links from parents to daughter cells

## Change Log
DynamicNuclearNet 1.0 (June 2023): The original dataset used for all experiments in Schwartz et al. 2023

## Instructions for use

```python
import os

import numpy as np
import pandas as pd

from deepcell_tracking.trk_io import load_trks

data_dir = 'path_to_data'
data = load_trks(os.path.join(data_dir, 'test.trks'))

X = data['X']
y = data['y']
lineages = data['lineages']

data_source = np.load(os.path.join(data_dir, 'data-source.npz'), allow_pickle=True)
meta = pd.DataFrame(data_source['test'], columns=['filename', 'experiment', 'pixel_size', 'screening_passed', 'time_step', 'specimen'])
```