FridleyLab / spatialGE
Methods for visualization and analysis of spatially-resolved gene expression
☆17Updated this week
Alternatives and similar repositories for spatialGE:
Users that are interested in spatialGE are comparing it to the libraries listed below
- Mosaic single cell data integration using non-overlapping features☆37Updated 2 years ago
- Reproducibility code for the manuscript: 'Inferring and perturbing cell fate regulomes in human cerebral organoids☆27Updated last year
- Parse ArchR arrow files to anndata h5ad☆13Updated last year
- iterative clustering pipeline of big single cell datasets.☆29Updated 2 months ago
- CellRegMap: A statistical framework for mapping context-specific regulatory variants using scRNA-seq☆21Updated 7 months ago
- CAST package☆33Updated 5 months ago
- NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.☆17Updated 6 months ago
- ☆28Updated 3 years ago
- R package: ConDecon is a clustering-independent deconvolution method for estimating cell abundances in bulk tissues using single-cell RNA…☆12Updated 5 months ago
- Custom codes accompanying single cell spatial transcriptomic study on the healthy human lung☆11Updated last year
- A sandbox for benchmarking detection of out-of-reference cells in single-cell genomics data☆13Updated 5 months ago
- .h5mu files interface for Seurat☆29Updated last year
- Python code for cross-condition label refinement in single-cell data with HiDDEN☆11Updated 6 months ago
- STREAM2: Fast, scalable, and interactive trajectory analysis of single-cell omics data☆9Updated last year
- Cell-type Relationship Analysis Workflow Done Across Distances☆31Updated last month
- A toolset for analysis and visualisation of Spatial Transcriptomics datasets.☆18Updated 3 years ago
- ☆17Updated 8 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…☆18Updated 2 years ago
- Information-based dimensionality reduction☆29Updated 3 months ago
- Image processing pipeline for spatial projects☆15Updated last year
- Evaluation of cell-cell interaction methods by integrating single-cell RNA sequencing data with spatial information☆19Updated 2 years ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆33Updated 3 years ago
- Spatially-resolved Transcriptomics via Epitope Anchoring☆18Updated last year
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆48Updated last month
- Flexible, probablistic metrics for quality control of scRNA-seq data☆19Updated 2 years ago
- Code, data and analysis for moslin.☆12Updated 6 months ago
- R package to infer multicellular programs from single-cell data using multi-omics factor analysis (MOFA)☆10Updated last year
- CeLEry: cell location recovery in single-cell RNA sequencing☆34Updated last month
- A unified interface to spatial transcriptomics deconvolution tools☆41Updated this week
- ☆21Updated 2 years ago