Neuroharmony API

Harmonization models

Neuroharmony(features, regression_features, ...)

Harmonization tool to mitigate scanner bias.

ComBat(features, covariates, eliminate_variance)

ComBat model for harmonization.

Data Preparation

combine_freesurfer(freesurfer_path)	Combine aparc and aseg data files in a single csv files.
combine_mriqc([mri_path, group_path, mclf_path])	Combine group_T1w and mclf files from the MRIQC output.
exclude_single_subject_groups(df, covariates)	Exclude categories with only one subject.

Download samples

fetch_mri_data()	Fetch example of MRI dataset.
fetch_sample()	Fetch a sample of FreeSurfer derived volumes in the Neuroharmony format.
fetch_trained_model()	Fetch Neuroharmony pre-trained model.

Kolmogorov-Smirnov Test

ks_test_grid(df, features[, sampling_variable])

Calculate the Kolmogorov-Smirnov score for all pairs of scanners.