zhanglabtools

STAGATE

Adaptive Graph Attention Auto-encoder for Spatial Domain Identification of Spatial Transcriptomics

DeepLearningTheory.course

Deep Learning Theory course

STAligner

STAligner: Integrating spatial transcriptomics data across different conditions, technologies, and developmental stages

BrainAlign

Code for "Whole brain alignment of spatial transcriptomics between humans and mice with BrainAlign"

STAGE

CAME

Cell-type Assignment and Module Extraction based on a heterogeneous graph neural network.

AI4OR.course

Artificial Intelligence for Operations Research course

STALocator

NPC_scRNA_Spatial_code

Data Analysis Process of "Single-cell and spatial transcriptomics reveal the molecular and histological mechanisms of radioresistance and immune escape in recurrent nasopharyngeal carcinoma"

ConsTADs

Consensus TADs

scHi-CSim

scHi-CSim, a simulator for generating single-cell Hi-C data.

CAMEX

STAMapper

STAMarker

STAMarker: Identify Spatial Domain-specific Variable Genes via Ensemble Graph Attention Autoencoders

TADGATE

TADGATE is a computational tool to identify TADs in Hi-C contact map with a graph attention autoencoder.

stagewiseNN

Constructing developmental tree from scRNA-seq data

ADC

source code for ADC

dbmd

Distributed Matrix Decomposition for Big Data Mining and Clustering

DeepLearningTheory.course.2024

Deep Learning Theory course

ImputeHiFI

ImputeHiFI: An Imputation Method for Multiplexed DNA FISH Data by Utilizing Single-Cell Hi-C and RNA FISH Data

Mactop

deciphering chromatin domain, domain community and chromunity for 3D genome maps

CAMUS

CASAVA

Resources of our paper CASAVA

MN-PCA

Matrix normal PCA for interpretable dimension reduction and graphical noise modeling

SmartGate

STADIA

BMD-MoG

The code file for paper BMD-MoG. main file: BMD_MoG.m

STABox

Interactive analysis and visualization of spatial transcriptome GUI program

STASCAN

TWAE

A non-adversarial generative autoencoder with divide-and-conquer strategy