Code

Computational Genomics

asGNN Spatial Transcriptomics model  [from: Predicting Spatially Resolved Gene Expression via Tissue Morphology using Adaptive Spatial GNNs. bioRxiv, 2024 (accepted to ECCB)]

Variational model for LLPS prediction  [from:  A Variational Graph Partitioning Approach to Modeling Protein Liquid-liquid Phase Separation. bioRxiv, 2024]

Linear Network of Cell-Type Phenotypes [from: Single-cell genomics and regulatory networks for 388 human brains, Science, 2024]

Deep Structured Phenotype Networks [from: Comprehensive functional genomic resource and integrative model for the human brain, Science, 2018]

Rank-projection Trees [from: Rank Projection Trees for Multilevel Neural Network Interpretation, NeurIPS Workshop on Machine Learning for Health, 2018]

AGI

Bisimulation Meta-probabilistic-programming proof in Guarded Cubical Type Theory [from:  A meta-probabilistic-programming language for bisimulation of probabilistic and non-well-founded type systems, AGI, 2022]

Higher-order/infinite-order probabilities in MeTTa [from: Formalizing Higher-order Probabilistic Type Systems in MeTTa, OpenCog Hyperon workshop, 2022]

Quantum Machine Learning

Deep Structured Phenotype Networks [from: ζ-QVAE: A Quantum Variational Autoencoder utilizing Regularized Mixed-state Latent Representations,  arXiv preprint arXiv:2402.17749, 2024]

Computer Vision [old]

Tiered Expansion Algorithm [from: A Tiered Move-making Algorithm for General Pairwise MRFs, CVPR, 2012]

Dual-decomposition code for Cosegmentation with area constraints [from: Multiple-Instance Learning with Structured Bag Models, EMMCVPR, 2011]

Style-Parameterized Boosting (StyP-Boost) [from: StyP-Boost: A Bilinear Boosting Algorithm for Learning Style-Parameterized Classifiers, BMVC, 2010]