multitalk / awesome-cell-cell-communication
Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
☆34Updated last month
Alternatives and similar repositories for awesome-cell-cell-communication:
Users that are interested in awesome-cell-cell-communication are comparing it to the libraries listed below
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆42Updated last year
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆60Updated 9 months ago
- Single cell omics biology annotations☆49Updated 3 weeks ago
- 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
- inferring regulatory cellular dynamics☆34Updated last month
- ☆44Updated 9 months ago
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆39Updated 3 years ago
- 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☆26Updated 5 years ago
- R implementation of GeneTrajectory☆52Updated 10 months ago
- SPROD: Spatial expression profiling de-noising☆35Updated last year
- Scalable sequence-informed embedding of single-cell ATAC-seq data with CellSpace☆36Updated last month
- 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
- UniTVelo, Temporally Unified RNA Velocity for single cell trajectory inference☆26Updated 3 months ago
- Gene group activity utility functions for Scanpy☆67Updated last month
- ☆49Updated 5 months ago
- PENCIL is a novel tool for singlecell data analysis to identify phenotype associated subpopulations and informative genes simultaneously.☆28Updated last year
- ☆47Updated last year
- Python implementation of Milo for differential abundance testing on KNN graph☆62Updated this week
- Accurate and fast cell marker gene identification with COSG☆41Updated last year
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆59Updated last month
- ☆26Updated last year
- Analysis of cell-cell communication at single-cell resolution☆100Updated 5 months ago
- Scripts and notebooks to reproduce all analysis from Massoni-Badosa et al. (2022)☆28Updated last month
- Co-accessibility network from single-cell ATAC-seq data. Python code, based on Cicero package (R).☆19Updated last week
- 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
- Quasilinear data representations for single-cell omics data analysis☆42Updated last year