Installation

To get started, create an environment using conda

conda create -n env_name python=3.8
conda activate env_name
conda env update -f requirements.yaml
pip install .

Downloading the dataset:

python3 workflow/verse19/download.py
python3 workflow/verse19/subjectwise_directory.py

Requirements for Data Preprocessing:

• Compile DRR Generator and add to path

Detailed explanation on : docs/install_requirements.md

Sample Command for dataset preprocessing

python3 preprocessing_vertebra.py configs/full/Verse2019-DRR-full.yaml --dataset verse2019 --parallel

Time to download the dataset
|Dataset        | Time              | Size (GB) | #CT Scans         |
|---            | ---               | ---       |---           |
|Verse20        | 2 hr @ 4 MB/s     |36           | 214         |
|Verse19        |                   |12           |160         |
|Totalsegmentor |                   |           |           |
|RibFrac        |                   |56           |         |
|LIDC           |                   |           |           |
|CTPelvic1k     |                   |           |           |
|CTSpine1k      |                   |           |           |
|RSNACervical   |                   |           |           |