A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better characterization of cell-cell communication.
☆44Oct 10, 2025Updated 4 months ago
Alternatives and similar repositories for CytoTalk
Users that are interested in CytoTalk are comparing it to the libraries listed below
Sorting:
- R toolkit for inference and analysis of pathway-mediated cell-cell communication chain from single-cell transcriptomics☆38Mar 10, 2025Updated 11 months ago
- Single-cell RNA-seq data-based inference of multilayer inter- and intra-cellular signaling networks☆29Aug 16, 2021Updated 4 years ago
- A computational method for inferring cell-cell communication signaling networks using single-cell transcriptomics data.☆21Dec 29, 2025Updated 2 months ago
- ☆23Sep 29, 2025Updated 4 months ago
- ☆23Jul 9, 2025Updated 7 months ago
- Framework for Unified Single-Cell Analysis (FUSCA) is a software package for single-cell data analysis developed in R. At the moment, it …☆22Feb 14, 2023Updated 3 years ago
- fastCNV R package to detect putative CNVs in single cell and spatial transcriptomics data☆39Jan 30, 2026Updated 3 weeks ago
- ☆11Sep 7, 2023Updated 2 years ago
- Analysis of cell-cell communication at single-cell resolution☆106Sep 10, 2024Updated last year
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆182Aug 12, 2025Updated 6 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆83Aug 10, 2025Updated 6 months ago
- LIANA: a LIgand-receptor ANalysis frAmework☆232Aug 7, 2024Updated last year
- NicheNet: predict active ligand-target links between interacting cells☆620Nov 12, 2025Updated 3 months ago
- ☆16Jun 17, 2021Updated 4 years ago
- ☆16Jul 9, 2024Updated last year
- TCR Reconstruction Algorithm for Paired-End Single cell☆14Oct 13, 2019Updated 6 years ago
- Multivariate stochastic modeling for transcriptional dynamics with cell-specific latent time using SDEvelo☆19Jan 28, 2025Updated last year
- ☆31Apr 9, 2022Updated 3 years ago
- Inferring cell-cell interactions from pseudotime ordering of scRNA-Seq data☆26Jan 11, 2023Updated 3 years ago
- Implementation of MaSigPro for scRNA-Seq Data☆18Jul 31, 2024Updated last year
- ☆13Jan 16, 2019Updated 7 years ago
- Estimation of Single-Cell Potency with Single Cell Entropy☆45Apr 12, 2023Updated 2 years ago
- Spatial direct messaging detected by bivariate Moran☆32Jul 16, 2025Updated 7 months ago
- Single cell STEM (scSTEM) is a shiny app based R package for visualizing and clustering genes in pseudotime ordered single cell RNA-seq d…☆19Jul 7, 2022Updated 3 years ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Dec 3, 2024Updated last year
- Automated, probabilistic assignment of cell types in scRNA-seq data☆211Jan 9, 2023Updated 3 years ago
- ☆50Jan 16, 2020Updated 6 years ago
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆34Jun 19, 2025Updated 8 months ago
- A portable and fast single cell type identifier☆64May 12, 2021Updated 4 years ago
- An energy landscape-based approach for measuring developmental states and inferring cellular trajectories from single cell RNA-seq data☆18Feb 17, 2021Updated 5 years ago
- ☆128Mar 27, 2022Updated 3 years ago
- ☆62Aug 26, 2025Updated 6 months ago
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆438Jan 22, 2026Updated last month
- R package implementation of Milo for testing for differential abundance in KNN graphs☆420Sep 4, 2025Updated 5 months ago
- Code to run OncoSig Analyses☆18Sep 30, 2020Updated 5 years ago
- ☆47Jul 24, 2025Updated 7 months ago
- Single-cell Mutual Information-based Network Engineering Ranger☆22Aug 28, 2025Updated 5 months ago
- R package for Bioconductor submission☆38Dec 8, 2022Updated 3 years ago
- Layered enrichment analysis tool enables facile enrichment using various statistics at once.☆18Feb 12, 2026Updated 2 weeks ago