KrishnaswamyLab repositories

104 repositories

STAGED
Public
Spatial Temporal Agent-Based Graph Evolution Dynamics (STAGED)
Jupyter Notebook
•
Other
•0•2•0•0•Updated Aug 24, 2026Aug 24, 2026
HiPoNet
Public
Jupyter Notebook
•
Other
•2•9•0•0•Updated Aug 18, 2026Aug 18, 2026
MIOFlow
Public
Jupyter Notebook
•
Other
•8•42•4•1•Updated Aug 4, 2026Aug 4, 2026
ProtSCAPE-Net
Public
Python
•0•0•0•0•Updated Aug 3, 2026Aug 3, 2026
Neurospectrum
Public
Geometrical and topological representation of latent trajectories of neural data
Jupyter Notebook
•0•3•0•0•Updated Jul 24, 2026Jul 24, 2026
BrainDyn
Public
Python
•0•2•0•0•Updated Jul 23, 2026Jul 23, 2026
ImmunoFoundation
Public
Python
•
Other
•1•1•0•1•Updated Jul 17, 2026Jul 17, 2026
blis
Public
Accompanying code for the AISTATS 2024 paper BLIS-Net: Classifying and Analyzing Signals on Graphs
gsp graph-signal-processing gnns
gsp graph-signal-processing gnns gnn
Jupyter Notebook
•
Other
•3•1•0•2•Updated Jul 6, 2026Jul 6, 2026
CellSpliceNet
Public
PyTorch implementation of CellSpliceNet, Afrasiyabi et al., 2025.
Jupyter Notebook
•
Other
•0•3•0•0•Updated Jun 22, 2026Jun 22, 2026
NeuralFIM
Public
Official code repository for paper NeuralFIM
Python
•
MIT License
•5•0•0•0•Updated Jun 11, 2026Jun 11, 2026
GraphWaveletEncoder
Public
Graph wavelet encoder
Python
•
Other
•0•2•0•0•Updated Jun 4, 2026Jun 4, 2026
LM-Dispersion
Public
[𝗜𝗖𝗠𝗟 𝟮𝟬𝟮𝟲] Dispersion loss counteracts embedding condensation and improves generalization in small language models
Python
•
Other
•1•19•0•0•Updated May 21, 2026May 21, 2026
ImmuneFoundation
Public
0•0•0•0•Updated May 9, 2026May 9, 2026
scShapeBench
Public
scShapeBench is a benchmarking dataset to recover shapes from single cell data.
Python
•0•0•0•0•Updated May 6, 2026May 6, 2026
hypergraph-wavelets
Public
Hyperedge Representations with Hypergraph Wavelets: Applications to Spatial Transcriptomics
graph signal-processing hypergraph
graph signal-processing hypergraph hypergraphs wavelets spatial-transcriptomics wavelets-on-graphs
Jupyter Notebook
•
Other
•4•7•0•1•Updated Mar 31, 2026Mar 31, 2026
omics_toolbox
Public
Jupyter Notebook
•0•0•0•0•Updated Mar 12, 2026Mar 12, 2026
RiTINI
Public
Regulatory Temporal Interaction Network Inference
Jupyter Notebook
•
Other
•3•16•1•0•Updated Mar 11, 2026Mar 11, 2026
ImmunoStruct
Public
[𝐧𝐚𝐭𝐮𝐫𝐞 𝐦𝐚𝐜𝐡𝐢𝐧𝐞 𝐢𝐧𝐭𝐞𝐥𝐥𝐢𝐠𝐞𝐧𝐜𝐞] ImmunoStruct enables multimodal deep learning for immunogenicity prediction
deep-learning computational-biology prediction
deep-learning computational-biology prediction immunology infectious-diseases multimodal-learning multimodal multimodal-deep-learning self-supervised-learning immunogenicity
Python
•
Other
•18•49•2•0•Updated Mar 5, 2026Mar 5, 2026
PHATE
Public
PHATE (Potential of Heat-diffusion for Affinity-based Transition Embedding) is a tool for visualizing high dimensional data.
data-visualization dimensionality-reduction unsupervised-learning
data-visualization dimensionality-reduction unsupervised-learning single-cell manifold-learning
Python
•
Other
•82•558•34•4•Updated Mar 4, 2026Mar 4, 2026
GRASSY-Net
Public
Jupyter Notebook
•
Other
•5•2•0•1•Updated Feb 19, 2026Feb 19, 2026
CUTS
Public
[MICCAI 2024] CUTS: A Deep Learning and Topological Framework for Multigranular Unsupervised Medical Image Segmentation
Python
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Other
•1•20•0•0•Updated Feb 14, 2026Feb 14, 2026
ImageFlowNet
Public
[ICASSP 2025 Oral] ImageFlowNet: Forecasting Multiscale Image-Level Trajectories of Disease Progression with Irregularly-Sampled Longitudinal Medical Images
time-series pytorch unet
time-series pytorch unet icassp trajectory-prediction medical-image-analysis image-prediction time-series-forecasting spatial-temporal neural-ode
Python
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Other
•2•35•0•0•Updated Feb 14, 2026Feb 14, 2026
Template
Public
Lab repository template.
Other
•0•2•0•0•Updated Jan 30, 2026Jan 30, 2026
Beta-Cell-Driven-PDAC
Public
Codebase for "Beta cells are essential drivers of pancreatic ductal adenocarcinoma development"
Jupyter Notebook
•
Other
•2•1•0•0•Updated Jan 20, 2026Jan 20, 2026
graphtools
Public
Tools for building and manipulating graphs in Python
Python
•
GNU General Public License v3.0
•17•46•13•3•Updated Dec 18, 2025Dec 18, 2025
cflows
Public
Jupyter Notebook
•0•3•0•0•Updated Dec 13, 2025Dec 13, 2025
TPHATE
Public
Python
•
Other
•9•44•1•1•Updated Nov 11, 2025Nov 11, 2025
HeatGeo
Public
Embedding with the Heat-geodesic dissimilarity
data-visualization dimensionality-reduction unsupervised-learning
data-visualization dimensionality-reduction unsupervised-learning manifold-learning
Jupyter Notebook
•
Other
•3•8•0•0•Updated Oct 30, 2025Oct 30, 2025
HEIST
Public
Python
•1•8•0•0•Updated Sep 30, 2025Sep 30, 2025
CellSpliceNet-dataset
Public
dataset for CellSpliceNet: Interpretable Multimodal Modeling of Alternative Splicing Across Neurons in C. elegans
0•0•0•0•Updated Sep 25, 2025Sep 25, 2025

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Krishnaswamy Lab

All

104 repositories

STAGED

HiPoNet

MIOFlow

ProtSCAPE-Net

Neurospectrum

BrainDyn

ImmunoFoundation

blis

CellSpliceNet

NeuralFIM

GraphWaveletEncoder

LM-Dispersion

ImmuneFoundation

scShapeBench

hypergraph-wavelets

omics_toolbox

RiTINI

ImmunoStruct

PHATE

GRASSY-Net

CUTS

ImageFlowNet

Template

Beta-Cell-Driven-PDAC

graphtools

cflows

TPHATE

HeatGeo

HEIST

CellSpliceNet-dataset

Repositories list

104 repositories