MSIVA: Multimodal Subspace Independent Vector Analysis

This repository contains a MATLAB implementation for Multimodal Subspace Independent Vector Analysis (MSIVA).

Simulation

Simulation code can be found in simulation.m.

MSIVA initialization workflow is implemented in run_mgpca_ica.m. Unimodal initialization workflow is implemented in run_pca_ica.m. Multimodal initialization workflow is implemented in run_mgpca_gica.m.

Neuroimaging Experiment

Neuroimaging experiment code can be found in experiment.m.

Visualization

Code for the ISBI 2023 paper figures can be found in figures/ISBI2023SIVA.

Fig. 1: plot_subspace_struct.ipynb

Fig. 2: plot_sim.ipynb

Fig. 3: plot_sim.ipynb

Fig. 4: plot_img.ipynb

Fig. 5: plot_img.ipynb

Fig. 6: dualmap.m

Code for the bioRxiv preprint figures can be found in figures/Journal2024MSIVA.

Fig. 1: plot_subspace_struct.ipynb

Fig. 3: plot_sim.ipynb

Fig. 4: plot_sim.ipynb

Fig. 5: plot_img_ukb.ipynb

Fig. 6: plot_img_sz.ipynb

Fig. 7: plot_img_ukb.ipynb

Fig. 8: plot_img_sz.ipynb

Figs. 9 & 10: dualcodeImage_AY_geomedian.m

Fig. 11: plot_sig_voxel.ipynb

Fig. 12: (1) Run age_delta.m to compute brain-age delta. (2) Run compute_geometric_median.py to compute geometric median of brain-age delta. (3) Run phenotype_map.py to compute spatial correlation between brain-age delta and phenotype variable. (4) Use dualcodeImage_beta1.m, dualcodeImage_delta2p_std.m, dualcodeImage_delta2p_geomedian.m, and dualcodeImage_phenotype.m to plot the dual-coded maps.

Fig. 13: dualcodeImage_beta1.m

Fig. 14: plot_img_ukb_rdc.ipynb

Fig. 15: plot_img_sz_rdc.ipynb

Figs. 16 & 17: dualcodeImage_AY_geomedian.m

Fig. 18: plot_num_crossmodal_voxel.ipynb

Figs. 19 & 20: compare_mmiva_msiva_ukb.ipynb

Figs. 21 & 22: compare_mmiva_msiva_sz.ipynb

Prerequisites

Group ICA Of fMRI Toolbox (GIFT)

Multidataset Independent Subspace Analysis (MISA)

References

If you find this repository useful, please consider citing at least one of the following papers:

@article {li2024multimodal,
	author = {Li, Xinhui and Kochunov, Peter and Adali, Tulay and Silva, Rogers F and Calhoun, Vince},
	title = {Multimodal subspace independent vector analysis effectively captures the latent relationships between brain structure and function},
	elocation-id = {2023.09.17.558092},
	year = {2024},
	doi = {10.1101/2023.09.17.558092},
	publisher = {Cold Spring Harbor Laboratory},
	URL = {https://www.biorxiv.org/content/early/2024/10/22/2023.09.17.558092},
	eprint = {https://www.biorxiv.org/content/early/2024/10/22/2023.09.17.558092.full.pdf},
	journal = {bioRxiv}
}

@inproceedings{li2023multimodal,
  title={Multimodal subspace independent vector analysis better captures hidden relationships in multimodal neuroimaging data},
  author={Li, Xinhui and Adali, Tulay and Silva, Rogers F and Calhoun, Vince D},
  booktitle={2023 IEEE 20th International Symposium on Biomedical Imaging (ISBI)},
  pages={1--5},
  year={2023},
  organization={IEEE}
}

@article{silva2020multidataset,
  title={Multidataset independent subspace analysis with application to multimodal fusion},
  author={Silva, Rogers F and Plis, Sergey M and Adal{\i}, T{\"u}lay and Pattichis, Marios S and Calhoun, Vince D},
  journal={IEEE Transactions on Image Processing},
  volume={30},
  pages={588--602},
  year={2020},
  publisher={IEEE}
}