Single-Cell-Genomics-Group-CNAG-CRG / ST-analysisLinks
General notes and resources on how to analyze Spatial Transcriptomics data
☆12Updated 2 years ago
Alternatives and similar repositories for ST-analysis
Users that are interested in ST-analysis are comparing it to the libraries listed below
Sorting:
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 5 months ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆81Updated 2 years ago
- Aligning gene expression trajectories of single-cell reference and query systems☆76Updated 2 months ago
- ☆41Updated 4 years ago
- R package for pathway analysis in scRNA-seq data☆75Updated last year
- Coarse-graining of large single-cell RNA-seq data into metacells☆90Updated 3 months ago
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆34Updated 4 months ago
- Functions for single cell data analysis☆32Updated 4 years ago
- Robust identification of perturbed cell types in single-cell RNA-seq data☆34Updated 11 months ago
- R package for semi-supervised single-cell data integration☆90Updated 2 months ago
- Gene set enrichment analysis for single-cell RNAseq data☆28Updated 2 years ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆89Updated 4 months ago
- Inference of cell-cell communication from single-cell RNAseq data☆48Updated 6 months ago
- Infer Copy Number Alterations and Clonality in (Single-Cell) RNA-Seq Data☆43Updated last year
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆33Updated last year
- Single cell RNA-seq analysis bundle☆37Updated 6 years ago
- Cluster Identity Predictor (R package implementation)☆20Updated 3 years ago
- Cell-type Relationship Analysis Workflow Done Across Distances☆38Updated 4 months ago
- ☆50Updated 5 years ago
- Analysis of cell-cell communication at single-cell resolution☆104Updated last year
- A unified interface to spatial transcriptomics deconvolution tools☆42Updated 2 weeks ago
- Code repository for the Tumor Immune Cell Atlas (TICA) project☆64Updated 3 years ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆30Updated last year
- scGSVA: Perform GSVA for single cell RNA seq☆65Updated 11 months ago
- Estimation of Single-Cell Potency with Single Cell Entropy☆43Updated 2 years ago
- NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.☆22Updated 4 months ago
- marker-based purification of cell types from single-cell RNA-seq datasets☆129Updated 3 months ago
- Profile purification of single-cell spatial transcriptomics data☆20Updated 2 months ago
- An R shiny based tool used for single cell RNA-seq data visualization and analysis.☆34Updated 4 years ago
- R Package for Single-Cell Dataset Processing and Visualization☆64Updated 4 years ago