config.yaml

#List of features to compute. Possible values a<re the keys in
#utilities.features_lut
features_to_compute: ['Asphericity', 'AreaDensity', 'Compactness1', 
'Compactness2', 'Elongation', 'Flatness', 'SphericalDisproportion', 'Sphericity', 
'VolumeDensity']

#List of the attributes to be included in the correlation analysis
#selected_attributes: ['lobulation', 'margin', 'sphericity', 'spiculation', 'malignancy']
selected_attributes: ['lobulation', 'sphericity', 'spiculation']

#Store the scans metadata here
scans_metadata_file: '../data/scans_metadata.csv'

#Store the nodules metadata here
nodules_metadata_file: '../data/nodules_metadata.csv'

#Store the average attributes here
attributes_file: '../data/attributes.csv'

#Store the features here
features_file: '../data/features.csv'

#Store the results of the correlation analysis here
correlation_results_file: '../data/correlation_results.csv'

#Limit the analysis to those nodules for which there are at least min_annotations
min_annotations_per_nodule: 3

#Consensus level for ROI indentification. A voxel is considered in the ROI if: 
#num_positive_annotations/num_annotations >= consensus_level 
consensus_level: 0.5

#Cache the ROI in nii format here
roi_cache: '../cache/mask.nii'

#Side length (in mm) of the tile images. Defines the scale factor.
side_length_tiles: 50.0

#HU window limits for signal resampling (tile images)
window_limits_tiles: [-1350.0, 150]

#Store the tiles here
tiles_folder: 'tiles'

#Store the scatter plots here
scatter_plots_folder: 'scatter-plots'

#Store .tex files here
latex_folder: 'LaTeX'

verbose: True