histocartography.utils.io module¶

Summary¶

Functions:

`buffer_plot_and_get`
`check_for_dir`	Checks if directory exists, if not, makes a new directory
`download_box_link`
`download_example_data`
`download_test_data`
`get_filename`	Get file name in the path
`h5_to_numpy`	Convert h5 object into numpy array
`h5_to_tensor`	Convert h5 object into torch tensor
`is_box_url`
`load_json`	Load json file as a dict.
`write_json`

is_box_url(candidate)[source]¶

buffer_plot_and_get(fig)[source]¶

get_filename(path)[source]¶: Get file name in the path

check_for_dir(path)[source]¶: Checks if directory exists, if not, makes a new directory

h5_to_tensor(h5_object, device)[source]¶: Convert h5 object into torch tensor

h5_to_numpy(h5_object)[source]¶: Convert h5 object into numpy array

load_json(fname)[source]¶: Load json file as a dict. :param fname: (str) path to json

write_json(path, data)[source]¶

download_box_link(url, out_fname='box.file')[source]¶

download_test_data(out_dir)[source]¶

download_example_data(out_dir='')[source]¶

Reference¶

If you use histocartography in your projects, please cite the following:

@inproceedings{pati2021,
    title = {Hierarchical Graph Representations for Digital Pathology},
    author = {Pushpak Pati, Guillaume Jaume, Antonio Foncubierta, Florinda Feroce, Anna Maria Anniciello, Giosuè Scognamiglio, Nadia Brancati, Maryse Fiche, Estelle Dubruc, Daniel Riccio, Maurizio Di Bonito, Giuseppe De Pietro, Gerardo Botti, Jean-Philippe Thiran, Maria Frucci, Orcun Goksel, Maria Gabrani},
    booktitle = {https://arxiv.org/pdf/2102.11057},
    year = {2021}
}