QSong-github

AntiFormer

Knowledge graph enhanced LLM for binding affinity prediction

DrugFormer

DrugFormer: graph-enhanced language model to predict drug sensitivity

HGGEP

Gene Expression Prediction from Histology Images via Hypergraph Neural Networks

RNAtools

Functions for processing RNA-seq data using multiple methods. Provides consistent interfaces for normalisation, testing, visualisation etc.

scGCN

scGCN is a graph convolutional networks algorithm for knowledge transfer in single cell omics

scLM

Automatic detection of consensus gene clusters across multiple single-cell datasets

seqc

Single-Cell Sequencing Quality Control and Processing Software

SiGra

Single-cell spatial elucidation through image-augmented graph transformer

SMGR

SMGR: a joint statistical method for integrative analysis of single-cell multi-omics data

spaCI

Deciphering spatial cellular communications through adaptive graph model

QSong-github/scGCN

scGCN is a graph convolutional networks algorithm for knowledge transfer in single cell omics

QSong-github/SiGra

Single-cell spatial elucidation through image-augmented graph transformer

QSong-github/AntiFormer

Knowledge graph enhanced LLM for binding affinity prediction

QSong-github/HGGEP

Gene Expression Prediction from Histology Images via Hypergraph Neural Networks

QSong-github/SMGR

SMGR: a joint statistical method for integrative analysis of single-cell multi-omics data

QSong-github/spaCI

Deciphering spatial cellular communications through adaptive graph model

QSong-github/DrugFormer

DrugFormer: graph-enhanced language model to predict drug sensitivity

QSong-github/scLM

Automatic detection of consensus gene clusters across multiple single-cell datasets

QSong-github/seqc

Single-Cell Sequencing Quality Control and Processing Software

QSong-github/SongLab

QSong-github/SpaRx

Elucidate spatial heterogeneity of drug sensitivity for personalized treatment

QSong-github/DSTG

Deconvoluting Spatial Transcriptomics Data through Graph-based Artificial Intelligence

QSong-github/python-cheatsheet

Comprehensive Python Cheatsheet

QSong-github/scPerb

scPerb: predict single-cell perturbation via style transfer-based variational autoencoder

QSong-github/xSiGra

Explainable model for single-cell spatial data elucidation

QSong-github/BIMM

Uncovering the dynamic effects of DEX treatment on lung cancer by integrating bioinformatic inference and multiscale modeling of scRNA-seq and proteomics data

QSong-github/brcarepred

QSong-github/BrMet

Single cell sequencing reveals the landscape of the brain metastatic microenvironment

QSong-github/CONICS

CONICS: COpy-Number analysis In single-Cell RNA-Sequencing

QSong-github/labs

Rmd source files for the HarvardX series PH525x

QSong-github/MachineLearning

Machine learning resources

QSong-github/methylation-recipes

Scripts related to 450k and EPIC data analysis

QSong-github/MIRACUM-Pipe

Whole exome sequencing pipeline including advanced variant annotation features and automated PDF reporting.

QSong-github/nextgenseq_pipeline

Exome/Capture/RNASeq Pipeline Implementation using snakemake

QSong-github/PRMLT

Matlab code for machine learning algorithms in book PRML

QSong-github/RNA_MUTECT_1.0-1

QSong-github/RNASEQ-Pipeline

Description of the different step in Pipeline RNAseq Single End. From fastq to count tables.

QSong-github/scCCA

scCCA: Leveraging multiple single cell datasets through CCA algorithm

QSong-github/SCeQTL

QSong-github/SPN

SPN: biological mechanism in breast cancer with different proliferation levels