Zitnik Lab @ Harvard (@mims-harvard)
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mims-harvard

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Top repositories

1

TDC

Therapeutics Commons (TDC-2): Multimodal Foundation for Therapeutic Science
Jupyter Notebook
999
star
2

nimfa

Nimfa: Nonnegative matrix factorization in Python
Python
540
star
3

decagon

Graph convolutional neural network for multirelational link prediction
Jupyter Notebook
447
star
4

TFC-pretraining

Self-supervised contrastive learning for time series via time-frequency consistency
Python
435
star
5

UniTS

A unified multi-task time series model.
Python
426
star
6

PrimeKG

Precision Medicine Knowledge Graph (PrimeKG)
Jupyter Notebook
405
star
7

graphml-tutorials

Tutorials for Machine Learning on Graphs
Jupyter Notebook
206
star
8

SubGNN

Subgraph Neural Networks (NeurIPS 2020)
Python
189
star
9

Raindrop

Graph Neural Networks for Irregular Time Series
Python
168
star
10

GraphXAI

GraphXAI: Resource to support the development and evaluation of GNN explainers
Python
166
star
11

scikit-fusion

scikit-fusion: Data fusion via collective latent factor models
Python
144
star
12

TxGNN

TxGNN: Zero-shot prediction of therapeutic use with geometric deep learning and clinician centered design
Jupyter Notebook
123
star
13

G-Meta

Graph meta learning via local subgraphs (NeurIPS 2020)
Python
118
star
14

Raincoat

Domain Adaptation for Time Series Under Feature and Label Shifts
Jupyter Notebook
106
star
15

ohmnet

OhmNet: Representation learning in multi-layer graphs
Python
79
star
16

PINNACLE

Contextual AI models for single-cell protein biology
Python
74
star
17

GNNGuard

Defending graph neural networks against adversarial attacks (NeurIPS 2020)
Python
58
star
18

SHEPHERD

SHEPHERD: Few shot learning for phenotype-driven diagnosis of patients with rare genetic diseases
HTML
45
star
19

GNNDelete

General Strategy for Unlearning in Graph Neural Networks
Python
36
star
20

TimeX

Time series explainability via self-supervised model behavior consistency
Python
32
star
21

crank

Prioritizing network communities
C++
29
star
22

SPECTRA

Spectral Framework For AI Model Evaluation
Roff
24
star
23

pathways

Disease pathways in the human interactome
Python
23
star
24

fastGNMF

Fast graph-regularized matrix factorization
Python
20
star
25

PDGrapher

Combinatorial prediction of therapeutic perturbations using causally-inspired neural networks
Jupyter Notebook
20
star
26

fusenet

Network inference by fusing data from diverse distributions
Python
14
star
27

medusa

Jumping across biomedical contexts using compressive data fusion
Python
7
star
28

scCIPHER

scCIPHER: Contextual deep learning on single-cell-enriched knowledge graphs in neurological disorders
Jupyter Notebook
7
star
29

life-tree

Evolution of protein interactomes across the tree of life
C++
7
star
30

patient-safety

Population-scale patient safety data reveal inequalities in adverse events before and during COVID-19 pandemic
Jupyter Notebook
7
star
31

nimfa-ipynb

IPython notebooks demonstrating Nimfa's functionality
6
star
32

ngmc

Network-guided matrix completion
Python
3
star
33

BMI702

Biomedical Artificial Intelligence
HTML
3
star
34

AWARE

AWARE: Contextualizing protein representations using deep learning on interactomes and single-cell experiments
Python
3
star
35

data-mining-unipv

Short Course on Data Mining at University of Pavia
Jupyter Notebook
2
star
36

collage-dicty

Gene prioritization by compressive data fusion and chaining
Python
2
star
37

copacar

Collective pairwise classification for multi-way (multi-relational) data analysis
Python
1
star
38

mims-harvard.github.io

Lab website
HTML
1
star