wanglabtongji / CCILinks
Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information
☆21Updated 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☆56Updated 5 months ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆80Updated 3 years ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆61Updated last year
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆36Updated 8 months ago
- ☆57Updated last month
- ☆31Updated 7 months ago
- CeLEry: cell location recovery in single-cell RNA sequencing☆35Updated 7 months ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆81Updated 2 years ago
- Unsupervised Inference of Developmental Directions for Single Cells☆22Updated last year
- Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…☆36Updated 2 years ago
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆78Updated 5 months ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆33Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆65Updated last month
- Gene regulatory network containing signed transcription factor-target gene interactions☆87Updated 4 months ago
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆34Updated 3 months ago
- ☆31Updated 2 months ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated 2 months ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆33Updated 3 years ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆26Updated 2 years ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆45Updated 3 years ago
- Aligning gene expression trajectories of single-cell reference and query systems☆76Updated last month
- Code for single-cell eQTL analysis of memory T cell data in Nathan, et al. bioRxiv (2021)☆20Updated 2 years ago
- UniTVelo, Temporally Unified RNA Velocity for single cell trajectory inference☆26Updated 10 months ago
- Single cell omics biology annotations☆51Updated 5 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆79Updated 6 months ago
- Gene group activity utility functions for Scanpy☆90Updated 9 months ago
- ☆125Updated 3 years ago
- R package for pathway analysis in scRNA-seq data☆75Updated last year
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 7 months ago
- ☆62Updated 2 years ago