xzhoulab / SPARKLinks
Spatially resolved transcriptomic analysis
☆60Updated 2 years ago
Alternatives and similar repositories for SPARK
Users that are interested in SPARK are comparing it to the libraries listed below
Sorting:
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆61Updated last year
- CAST package☆40Updated 11 months ago
- Integrative and Reference-Informed Spatial Domain Detection for Spatial Transcriptomics☆39Updated 8 months ago
- TACCO: Transfer of Annotations to Cells and their COmbinations☆59Updated last month
- Python package to find communication-driven intercellular flows from single-cell RNA-sequencing and spatial transcriptomics data.☆78Updated 5 months ago
- Python implementation of Milo for differential abundance testing on KNN graph☆74Updated 7 months ago
- Spatial Cellular Estimator for Tumors☆57Updated last month
- ☆30Updated 5 months ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆81Updated 3 years ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 5 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- ☆31Updated 7 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆65Updated last week
- ☆59Updated 3 months ago
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated last year
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆78Updated 2 months ago
- scTM: A package for topic modelling in transcriptomics data☆22Updated last year
- Awesome list of tools and methods to perform spatial transcriptomic data analysis.☆46Updated 4 years ago
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆64Updated 3 months ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆80Updated 6 months ago
- Spatial mapping of cell types by integration of transcriptomics data☆94Updated 3 years 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
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆41Updated last month
- R package for pathway analysis in scRNA-seq data☆75Updated last year
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆43Updated 3 weeks ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆81Updated 2 years ago
- ☆31Updated 2 months ago
- ☆26Updated last year
- R implementation of GeneTrajectory☆65Updated last year
- Aligning gene expression trajectories of single-cell reference and query systems☆76Updated 2 months ago