cell-cell-interaction

There are 4 repositories under cell-cell-interaction topic.

sqjin / CellChat
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
cell-cell-communication single-cell-analysis cell-cell-interaction microenvironment
Language:R 610
jinworks / CellChat
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
cell-cell-communication cell-cell-interaction microenvironment single-cell-analysis spatial-transcriptomics
Language:R 215
theislab / ncem
Learning cell communication from spatial graphs of cells
tensorflow gnn glm cvae encoder-decoder-model scanpy squidpy cell-cell-communication cell-cell-interaction
Language:Python 99
saeyslab / multinichenetr
MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell transcriptomics data
cell-cell-communication differential-expression intercellular-communication intercellular-signaling ligand-receptor ligand-receptor-interaction ligand-target scrna-seq single-cell single-cell-rna-seq systems-biology cell-cell-interaction
Language:HTML 98
earmingol / cell2cell
User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins
bioinformatics rnaseq rna-seq sc-rna-seq single-cell single-cell-rna-seq cell-cell-communication cell-cell-interaction bulk-rna-seq computational-biology machine-learning
Language:Python 55
ZJUFanLab / SpaTalk
Knowledge-graph-based cell-cell communication inference for spatially resolved transcriptomic data
cell-cell-communication cell-cell-interaction graph-network knowledge-graph ligand-receptor-interaction single-cell spatial-data-analysis spatial-transcriptomics spatially-resolved-transcriptomics
Language:R 54
Mr-Milk / SpatialTis
Spatial analysis toolkit for single cell multiplexed tissue data
single-cell spaital-analysis tissue spatial-distribution heterogeneity network hotspot imaging-mass-cytometry multiplexed-ion-beam-imaging cell-cell-interaction spatial-analysis spatial-omics
Language:Python 29
ZJUFanLab / CellTalkDB
A manually curated database of literature-supported ligand-receptor interactions in human and mouse
single-cell rna-seq data-analysis ligand-receptor cell-cell-interaction cell-cell-communication database toolkit
Language:R 25
multitalk / awesome-cell-cell-communication
Collection of computational tools for cell-cell communication inference for single-cell and spatially resolved omics
cell-cell-communication cell-cell-interaction single-cell-omics spatial-data-analysis transcriptomics-data
Language:Jupyter Notebook 22
HistoJS
Mmasoud1 / HistoJS
HistoJS: Web-Based Analytical Tool for Multiplexed Images. Limited Github Online Demo 👇
cell-cell-interaction cell-segmentation mibiscope multiplexed-imaging multiplexed-imaging-analysis ome-tiff phenotyping proteomics proteomics-data-analysis single-cell whole-slide-imaging digital-slide-archive image-processing multichannel spatial-biology spatial-data-analysis
Language:JavaScript 15
multitalk / scCrossTalk
Infer and visualize cell-cell communication for single-cell RNA-seq data
cell-cell-communication cell-cell-interaction ligand-receptor-interaction single-cell-analysis single-cell-rna-seq
Language:HTML 5
pdmoerland / SingleCellNotes
Links to interesting courses, tutorials, papers, software etc. related to single-cell omics data analysis
single-cell trajectory-inference pseudotime-estimation spatial-transcriptomics gene-regulatory-network-inference cell-cell-interaction
5
MihirBafna / clarify
Multi-level Graph Autoencoder (GAE) to clarify cell cell interactions and gene regulatory network inference from spatially resolved transcriptomics
cell-cell-interaction gene-regulatory-network graph-auto-encoder
Language:Jupyter Notebook 4
multitalk / miRTalk
Extracellular vesicle-derived miRNA-mediated cell-cell communication inference for single-cell transcriptomic data
cell-cell-communication cell-cell-interaction extracellular-vesicles mirna scrna-seq-data single-cell-rna-seq exosomes microvesicles
Language:HTML 4
ZJUFanLab / scDeepTalk
Infer cell-cell communications based on feed-forward neural network
cell-cell-communication cell-cell-interaction deep-learning feed-forward-neural-networks single-cell-analysis single-cell-rna-seq
Language:R 3
antoineruzette / goo_gallery
Goo is the Blender library for simulating biological cells, tissues and embryos in 3D.
blender developmental-biology rendering cell-cell-interaction modeling-and-simulation
Language:SCSS 0
dalodriguez / ExPCom
Differential communication analysis for scRNAseq datasets based on expression products
bioinformatics cell-cell-communication cell-cell-interaction single-cell transcriptomics
Language:R
Heinyxiao / TumorCrosstalk
A study of the crosstalk between cancer cells and tumor microenvironmental cells.
cell-cell-interaction single-cell-genomics
zhou-ran / SRCA
Spatially Resolved Chimeric Analysis
cell-cell-interaction spatial-sequencing
Language:R