Example data for "Characterization of tumour heterogeneity through segmentation-free representation learning on multiplexed imaging data"

This repository includes two example dataset and configurations for running CANVAS (https://github.com/tanjimin/CANVAS).

The repostory is structured as follows:

├── Kim_2022
│   ├── configs
│   │   ├── config.yaml
│   │   └── preprocess
│   │       ├── channels_vis_strength.yaml
│   │       └── selected_channels_w_color.yaml
│   └── data
│       └── raw_data
│           ├── common_channels.txt
│           └── image_files
└── Sorin_2023
    ├── configs
    │   ├── config.yaml
    │   └── preprocess
    │       ├── channels_vis_strength.yaml
    │       └── selected_channels_w_color.yaml
    └── data
        └── raw_data
            ├── common_channels.txt
            └── image_files

The source IMC data from this repository are from Kim et al. 2022 (https://www.nature.com/articles/s41592-022-01657-2) and Sorin et al. 2023 (https://www.nature.com/articles/s41586-022-05672-3). They are avaiable at: https://zenodo.org/records/4110560 and https://zenodo.org/records/7760826.