ZJUFanLab / SpaTalk
Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
☆64Updated last month
Alternatives and similar repositories for SpaTalk:
Users that are interested in SpaTalk are comparing it to the libraries listed below
- Additional code and analysis from the single-cell integration benchmarking project☆57Updated 2 years ago
- Gene group activity utility functions for Scanpy☆67Updated 2 months ago
- an integrative algorithm to distinguish spatially variable cell subclusters by reconstructing cells onto a pseudo space with spatial tran…☆22Updated last year
- Predict RNA velocity through deep learning☆66Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆59Updated 8 months ago
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆109Updated last year
- Python implementation of Milo for differential abundance testing on KNN graph☆62Updated this week
- ☆114Updated 2 years ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆46Updated last year
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆71Updated 3 months ago
- Metacells - Single-cell RNA Sequencing Analysis☆101Updated 4 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆121Updated this week
- Adversarial domain translation networks for integrating large-scale atlas-level single-cell datasets☆30Updated last year
- Methods to compute Local Inverse Simpson's Index (LISI)☆60Updated 3 years ago
- A tool for semi-automatic cell type harmonization and integration☆102Updated last year
- ☆52Updated 6 months ago
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆39Updated 3 years ago
- ☆44Updated 4 months ago
- ☆44Updated 9 months ago
- Spatial Cellular Estimator for Tumors☆47Updated this week
- Spatial transcriptomics of heart tissue☆80Updated last year
- Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using h…☆46Updated this week
- Code repository for the Tumor Immune Cell Atlas (TICA) project☆62Updated 2 years ago
- BANKSY: spatial clustering☆87Updated 6 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆39Updated 3 years ago
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆88Updated 2 weeks ago
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆77Updated last year
- A computational method to rank and infer drug-responsive cell population towards in-silico drug perturbation using a target-perturbed gen…☆45Updated 6 months ago
- STAligner is a tool for alignment and integration of spatially resolved transcriptomics data.☆35Updated 10 months ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆55Updated 10 months ago