secrierlab / SpottedPy
Hotspot cluster distance analysis in spatial transcriptomic data
☆25Updated last month
Alternatives and similar repositories for SpottedPy:
Users that are interested in SpottedPy are comparing it to the libraries listed below
- Cell-type Relationship Analysis Workflow Done Across Distances☆31Updated last month
- Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics☆33Updated 3 weeks ago
- NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.☆17Updated 5 months ago
- ☆36Updated 6 months ago
- ☆23Updated last month
- Stitch multiple Visium slides together☆15Updated last year
- FastIntegrate integrates thousands of scRNA-seq datasets and outputs batch-corrected values for downstream analysis☆23Updated 5 months ago
- Code for a multimodal atlas of healthy and injured cell states and niches in the human kidney☆16Updated last year
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆27Updated 4 months ago
- iterative clustering pipeline of big single cell datasets.☆29Updated 2 months ago
- ☆16Updated 9 months ago
- ☆48Updated 2 years ago
- .h5mu files interface for Seurat☆29Updated last year
- Code used to process the data of the HBCA project☆25Updated last year
- CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration☆47Updated 5 months ago
- A unified interface to spatial transcriptomics deconvolution tools☆40Updated 3 weeks ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆30Updated 9 months ago
- ☆16Updated 8 months ago
- Analysis of imbalanced data and its impacts in a scRNA-seq integration setting☆30Updated 3 weeks ago
- cell type specific, trait-associated gene regulation☆21Updated 3 weeks ago
- ☆30Updated 2 months ago
- ☆12Updated last week
- Scripts used to perform the analyses to study the Biology of Myeloid Cells in Glioma Microenvironments☆13Updated 2 weeks ago
- Analysis cell-type-specific functional gene network, with SCINET and HumanNetv3☆40Updated last year
- ☆54Updated last year
- cell type deconvolution for multi-condition bulk RNA-seq data☆24Updated 3 years ago
- ☆9Updated 8 months ago
- Analyzing cellular niches in spatial transcriptomics data☆29Updated 4 months ago
- Scripts used for the Differential NicheNet analyses in the Liver Atlas paper Guilliams et al., Cell 2022☆8Updated 3 years ago
- Method for de novo mutation calling from droplet based single cell RNA seq data☆13Updated 3 years ago