WangLab @ U of T (@bowang-lab)
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Top repositories

1

MedSAM

Segment Anything in Medical Images
Jupyter Notebook
2,136
star
2

scGPT

Jupyter Notebook
815
star
3

U-Mamba

U-Mamba: Enhancing Long-range Dependency for Biomedical Image Segmentation
Python
445
star
4

Graph-Mamba

Graph-Mamba: Towards Long-Range Graph Sequence Modelling with Selective State Spaces
Python
134
star
5

joint-ner-and-re

This repository contains the corpora and supplementary data, along with instructions for recreating the experiments, for our paper: "End-to-end Named Entity Recognition and Relation Extraction using Pre-trained Language Models".
Jupyter Notebook
90
star
6

MedSAMSlicer

3D Slicer Plugin for Segment anything in medical images
Python
74
star
7

BIONIC

Biological Network Integration using Convolutions
Python
55
star
8

clinical-camel

Python
47
star
9

BLEEP

Spatially Resolved Gene Expression Prediction from H&E Histology Images via Bi-modal Contrastive Learning
Python
40
star
10

DeepVelo

Python
34
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11

MEDIQA-Chat-2023

A repository for organizing our submission to the MEDIQA-Chat Tasks @ ACL-ClinicalNLP 2023
Python
19
star
12

AGILE

AGILE Platform: A Deep Learning-Powered Approach to Accelerate LNP Development for mRNA Delivery
Python
18
star
13

OCAT

Python
17
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14

scFormer

Python
16
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15

Transformer-GCN-QA

A multi-hop Q/A architecture based on transformers and GCNs.
Python
15
star
16

DPM-MedImgEnhance

Pre-trained Diffusion Models for Plug-and-Play Medical Image Enhancement
Python
14
star
17

MAESTER

Masked Autoencoder Guided Segmentation at Pixel Resolution
Python
11
star
18

CONCERTO

Carcinogenicity prediction with graph neural networks
Jupyter Notebook
10
star
19

LabChat

Jupyter Notebook
9
star
20

NanoMASK

mouse pet-ct image segmentation
Python
7
star
21

simATAC

A single-cell ATAC-seq simulation framework (R package)
R
5
star
22

Transplant_Time_Series

HTML
5
star
23

CongFu

CongFu: Conditional Graph Fusion for Drug Synergy Prediction
Python
5
star
24

DES

Single-Shot Object Detection with Enriched Semantics
C++
4
star
25

SIMLR_PY

Python version of SIMLR
Python
3
star
26

IntegrAO

Integrate Any Omics: Towards genome-wide data integration for patient stratification
Jupyter Notebook
3
star
27

SIMLR

Single-cell Interpretation via Multi-kernel LeaRning
R
2
star
28

unicell

Universal cellular segmentation models
Python
2
star
29

gcn-drug-repurposing

Python
2
star
30

shape-attentive-unet

Code for our paper SAUNet: Shape Attentive U-Net for Interpretable Medical Image Segmentation. https://arxiv.org/pdf/2001.07645.pdf
Python
1
star
31

ViST-Echo

PD's thesis work towards a Video Swin Transformer for echocardiographic data.
Python
1
star