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☆57Updated 2 weeks ago
- ☆60Updated 2 months ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆81Updated 3 years ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆40Updated 9 months ago
- ☆31Updated 8 months ago
- Bi-order integration (in silico multi-omics data) of single cell RNA sequencing, single cell ATAC sequencing, spacial transcriptomics and…☆37Updated 2 years ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆26Updated 2 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆83Updated 2 years ago
- ESICCC: A systematic computational framework for evaluation, selection and integration of cell-cell communication inference methods☆12Updated last year
- CeLEry: cell location recovery in single-cell RNA sequencing☆35Updated 9 months ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆63Updated last year
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆34Updated 4 months ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated 3 months ago
- Unsupervised Inference of Developmental Directions for Single Cells☆22Updated last year
- Code for major analyses in "Integrative spatial analysis reveals a multi-layered organization of glioblastoma" paper☆52Updated 10 months ago
- ☆30Updated 6 months ago
- ☆31Updated 3 weeks ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆45Updated 3 years ago
- Code for single-cell eQTL analysis of memory T cell data in Nathan, et al. bioRxiv (2021)☆20Updated 2 years ago
- We describe a transcriptional reference map of human natural killer (NK) cells based on analysis of scRNA-seq data from both blood and ti…☆13Updated last year
- UniTVelo, Temporally Unified RNA Velocity for single cell trajectory inference☆26Updated last year
- scTM: A package for topic modelling in transcriptomics data☆24Updated last year
- ☆36Updated 3 weeks ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- R implementation of GeneTrajectory☆65Updated last year
- 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
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆33Updated last year
- A novel computational method for inferring cell-type-specific signaling networks using single-cell transcriptomics data for better charac…☆43Updated last month
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Updated 11 months ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆34Updated 3 years ago