Software

Code Supporting Publications

• Adeli E, et al. : Representation Learning with Statistical Independence to Mitigate Bias, 2020 Winter Conference on Applications of Computer Vision, In press.

• Adeli, E et al.: Deep Learning Identifies Morphological Determinants of Sex Differences in the Pre-Adolescent Brain, NeuroImage, In press [Additional Code]

• Gadgil S et al.: Spatio-Temporal Graph Convolution for Functional MRI Analysis, Medical Image Computing and Computer-Assisted Intervention, In press

• Lu M et al.: Vision-based Estimation of MDS-UPDRSGait Scoresfor Assessing Parkinson’s Disease Motor Severity , Medical Image Computing and Computer-Assisted Intervention, In press

• Ayub R et al.: Inpainting Cropped Diffusion MRI using Deep Generative Models, 3rd Workshop on Predictive Intelligence in Medicine, Springer, Lecture Notes in Computer Science, In press

• Adeli et al.: Logistic Regression Confined by Cardinality-Constrained Sample and Feature Selection, IEEE Transactions on Pattern Analysis And Machine Intelligence, 2020

• Adeli et al.: Novel Machine Learning Identifies Brain Patterns Distinguishing Diagnostic Membership of Human Immunodeficiency Virus, Alcoholism, and Their Comorbidity of Individuals, Biological Psychiatry: CNNI, 2019

• Zhao et al.: Confounder-Aware Visualization of ConvNets, International Workshop on Machine Learning in Medical Imaging, 2019

• Zhao et al.: Variational autoencoder with truncated mixture of Gaussians for functional connectivity analysis, International Conference on Information Processing in Medical Imaging, 2019

• Zhao et al.: Longitudinally Consistent Estimates of Intrinsic Functional Networks , Human Brain Mapping, 2019

• Adeli et al.: Chained Regularization for Identifying Brain Patterns Specific to HIV Infection , NeuroImage, 2018

• Adeli et al.: Multi-Label Transduction for Identifying Disease Comorbidity Patterns , Medical Image Computing and Computer Assisted Intervention, 2018

• Zhao et al.: A Riemannian Framework for Longitudinal Analysis of Resting-State Functional Connectivity , International Conference on Medical Image Computing and Computer-Assisted Intervention, 2018

Software Packages

• Scalable Informatics for Biomedical Imaging Studies (SIBIS)
  SIBIS consists of IT infrastructure for uploading behavioral and imaging data through application programming interfaces to a central biomedical data repository,querying the data through a web interface, a validated workflow to perform qualitycontrol, and a multi-modal image processing pipeline.

• Sviewer
  3D+t viewer based on 3D Slicer technology

• BASIS
  Development environment accompanying tools for testing and packaging software across platforms and languages

• AtlasCreator
  Automatically extracts cohort specific data from set of training images

• GLISTR
  First automatic tool for segmenting glioma and healthy tissue from MR brain scans

• SceneView
  Graphical browser for scenes saved in 3D Slicer

• Annotation
  A tool for annotating medical scans using state-of-the-art 2D and 3D

• Change Tracker
  Semi-automatic tool for quantification of the subtle changes in pathology

• EMSegmenter
  An advanced MRI segmentation tool