multitalk / awesome-cell-cell-communication
Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
☆28Updated last week
Related projects ⓘ
Alternatives and complementary repositories for awesome-cell-cell-communication
- Single cell omics biology annotations☆48Updated 2 months ago
- PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.☆26Updated 10 months ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆60Updated 6 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆56Updated 5 months ago
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆40Updated last year
- Additional code and analysis from the single-cell integration benchmarking project☆55Updated last year
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- ☆79Updated last week
- ☆47Updated 9 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆38Updated 3 years ago
- scDesign3 generates realistic in silico data for multimodal single-cell and spatial omics☆86Updated last week
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆66Updated this week
- Python implementation of Milo for differential abundance testing on KNN graph☆60Updated last year
- Predict RNA velocity through deep learning☆64Updated 11 months ago
- A novel unsupervised batch removal framework, called iMAP, based on neural networks.☆35Updated 2 years ago
- Imputation method for scRNA-seq based on low-rank approximation☆73Updated 11 months ago
- Methods to compute Local Inverse Simpson's Index (LISI)☆58Updated 3 years ago
- ☆32Updated 2 months ago
- This repository contains all code used for the Human Lung Cell Atlas project.☆44Updated last year
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆66Updated last year
- ☆40Updated 6 months ago
- Gene group activity utility functions for Scanpy☆56Updated 3 months ago
- Single-cell disease relevance score (scDRS)☆113Updated last month
- Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…☆34Updated last year
- MAGIC - imputation and de-noising single-cell RNA seq data sets☆25Updated 5 years ago
- Analysis of cell-cell communication at single-cell resolution☆96Updated 2 months ago
- ☆40Updated 10 months ago
- R implementation of GeneTrajectory☆49Updated 7 months ago
- Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).☆18Updated 3 weeks ago
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆58Updated last week