wanglabtongji / CCILinks
Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information
☆22Updated 3 years ago
Alternatives and similar repositories for CCI
Users that are interested in CCI are comparing it to the libraries listed below
Sorting:
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆57Updated last week
- ☆60Updated 3 months ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆91Updated 6 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Updated last year
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆81Updated 3 years ago
- scMEGA: Single-cell Multiomic Enhancer-based Gene regulAtory network inference☆42Updated last year
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆34Updated 3 years ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆62Updated last year
- ☆31Updated 9 months ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆44Updated 3 years ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆41Updated 10 months ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆56Updated 6 months ago
- NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.☆23Updated 5 months ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆30Updated last year
- Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…☆37Updated 2 years ago
- Aligning gene expression trajectories of single-cell reference and query systems☆77Updated 3 months ago
- ☆30Updated 7 months ago
- ☆14Updated 5 months ago
- Cell-type Relationship Analysis Workflow Done Across Distances☆37Updated 2 weeks ago
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆38Updated 4 years ago
- A repository for benchmarking spatial deconvolution and mapping tools☆35Updated 6 months ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆33Updated last year
- Estimation of Single-Cell Potency with Single Cell Entropy☆43Updated 2 years ago
- ☆41Updated 4 years ago
- Unsupervised Inference of Developmental Directions for Single Cells☆22Updated last year
- A unified interface to spatial transcriptomics deconvolution tools☆45Updated 3 weeks ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆67Updated last month
- ☆48Updated last month
- A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…☆43Updated last month
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆79Updated 7 months ago