Gao Lab

All

30 repositories

SVEN
Public
Quantifying the regulatory potential of genetic variants via a hybrid sequence-oriented model
Python
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Other
•1•3•0•0•Updated Jan 9, 2025Jan 9, 2025
DECIPHER
Public
DECIPHER for learning high-fidelity disentangled embeddings from spatial omics data
transformer single-cell-omics spatial-transcriptomics contrastive-learning spatial-omics
Python
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MIT License
•0•11•0•0•Updated Dec 22, 2024Dec 22, 2024
SLAT
Public
Spatial-Linked Alignment Tool
bioinformatics deep-learning spatial-data single-cell single-cell-analysis graph-neural-networks spatial-transcriptomics
Python
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MIT License
•7•84•0•0•Updated Dec 20, 2024Dec 20, 2024
SEERS
Public
Jupyter Notebook
•0•2•0•0•Updated Dec 8, 2024Dec 8, 2024
SPARKLE
Public
HTML
•0•0•0•0•Updated Nov 26, 2024Nov 26, 2024
PASSAGE
Public
Phenotype Associated Spatial Signature Analysis with Graph-based Embedding
bioinformatics deep-learning spatial-transcriptomics
Jupyter Notebook
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MIT License
•1•18•0•0•Updated Sep 30, 2024Sep 30, 2024
Gastric-Cancer-Lymph-Node-Metastasis
Public
R
•0•0•0•0•Updated Sep 3, 2024Sep 3, 2024
Cell_BLAST
Public
A BLAST-like toolkit for large-scale scRNA-seq data querying and annotation.
bioinformatics single-cell single-cell-rna-seq deep-learning
Python
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MIT License
•13•89•7•0•Updated Jul 23, 2024Jul 23, 2024
GLUE
Public
Graph-linked unified embedding for single-cell multi-omics data integration
bioinformatics deep-learning single-cell single-cell-multiomics
Python
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MIT License
•58•392•16•2•Updated Feb 23, 2024Feb 23, 2024
SLE-ImmuneAtlas
Public
scRNA and scVDJ analysis for SLE samples
single-cell-analysis single-cell-immune-profiling
Jupyter Notebook
•1•8•0•0•Updated Sep 24, 2023Sep 24, 2023
ProjectManagementWorkshop
Public template
This is a demo repo for project management in Technology Workshop 2023
Python
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MIT License
•0•0•0•0•Updated Aug 25, 2023Aug 25, 2023
LOST_and_FOUND
Public
Python
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Other
•1•9•0•0•Updated Apr 7, 2023Apr 7, 2023
Markonv_figures
Public
Markonv: a novel convolutional layer for identifying inter-positional correlations effectively and efficiently This is the repository for reproducing figures and tables in the paper.
Python
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MIT License
•1•4•0•0•Updated Dec 11, 2022Dec 11, 2022
HERE
Public
Human Embryonic RNA Editome
R
•0•3•0•0•Updated Dec 1, 2022Dec 1, 2022
GLUE-bioconda-recipes
Public
Conda recipes of GLUE for the bioconda channel.
Shell
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MIT License
•3.3k•0•0•0•Updated Sep 2, 2022Sep 2, 2022
Markonv
Public
core code of Markonv layer and Markonv operator
Cuda
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MIT License
•1•2•0•0•Updated Jun 17, 2022Jun 17, 2022
RiboCalc
Public
RiboCalc data and script
Python
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Other
•1•6•0•0•Updated May 26, 2022May 26, 2022
vConv-Figures_and_Tables
Public
The repository for reproducing figures and tables in the vConv paper
deep-learning convolutional-neural-networks
Python
•1•2•2•0•Updated Mar 19, 2022Mar 19, 2022
Guideline-for-Computational-Biology-and-Bioinformatics
Public
95•327•0•0•Updated Sep 16, 2021Sep 16, 2021
CPC2_standalone
Public
Official repo for the standalone package of Coding Potential Calculator (CPC) 2.
bioinformatics lncrna noncoding long-non-coding cpc2
Python
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GNU General Public License v3.0
•12•23•2•0•Updated Sep 11, 2021Sep 11, 2021
REVA-Data_Source_Code
Public
Python
•0•0•0•0•Updated Jul 8, 2021Jul 8, 2021
vConv
Public
An implementation of vConv layer.
deep-learning convolutional-neural-networks
Python
•2•9•1•0•Updated Apr 28, 2021Apr 28, 2021
CARMEN
Public
The Standalone package of CARMEN
Python
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Other
•1•1•0•0•Updated Jan 22, 2021Jan 22, 2021
sgRNA
Public
A pipeline for sgRNA design
R
•3•0•0•0•Updated Sep 23, 2020Sep 23, 2020
FunTFBS
Public
A package to identify functional TFBS
transcriptional-regulatory-network tfbs
Perl
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GNU General Public License v3.0
•2•1•0•0•Updated Aug 19, 2020Aug 19, 2020
scRNAseq_Benchmark
Public
Bench-marking classification tools for scRNA-seq data
Python
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MIT License
•57•4•0•0•Updated Mar 4, 2020Mar 4, 2020
ePooling
Public
Expectation pooling: An effective and interpretable method of pooling for predicting DNA-protein binding
Python
•3•17•0•0•Updated Sep 21, 2019Sep 21, 2019
kernel-to-PWM
Public
C
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Other
•2•7•0•0•Updated Jun 28, 2019Jun 28, 2019
Cell_BLAST-notebooks
Public archive
Jupyter notebooks for Cell BLAST
Jupyter Notebook
•1•2•0•0•Updated Apr 21, 2019Apr 21, 2019
COPE
Public
Context-Oriented Predictor for variant Effects
Perl
•1•0•1•0•Updated Jun 29, 2018Jun 29, 2018