raphael-group / CalicoSTLinks
Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
☆39Updated 2 weeks ago
Alternatives and similar repositories for CalicoST
Users that are interested in CalicoST are comparing it to the libraries listed below
Sorting:
- Spatial Transcriptomics Algorithm Reconstructing Copy-number Heterogeneity☆27Updated 11 months ago
- ☆54Updated 2 weeks ago
- ☆22Updated 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…☆11Updated 9 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆68Updated 8 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 2 years ago
- cell type specific, trait-associated gene regulation☆27Updated 3 months ago
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆61Updated last year
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆53Updated last month
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆28Updated 7 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆54Updated 2 months ago
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆26Updated 8 months ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆32Updated last year
- Cell age determination by scATAC-seq and bulk-ATAC-seq☆32Updated 10 months ago
- CellNeighborEX: Deciphering Neighbor-Dependent Gene Expression from Spatial Transcriptomics Data☆15Updated last year
- Scripts and notebooks to reproduce all analysis from Massoni-Badosa et al. (2022)☆28Updated 6 months ago
- ☆52Updated 2 years ago
- ☆28Updated 4 months ago
- Repository to reproduce all analyses for Lareau*, Ludwig*, et al. 2020☆16Updated 2 years ago
- SenePy is a set of tools to score single-cells based on their expression of cell-specific senescence markers. Please see the following pu…☆38Updated 5 months ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆61Updated last week
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆33Updated 3 years ago
- Independent Component Analysis decipher functional modules for better cell clustering and annotation☆16Updated 3 years ago
- Unsupervised Inference of Developmental Directions for Single Cells☆22Updated last year
- ☆29Updated 2 months ago
- CellANOVA: Cell State Space Analysis of Variance for signal recovery in single cell batch integration☆48Updated 8 months ago
- ☆30Updated 4 months ago
- ☆54Updated 11 months ago
- MERCI for tracing of mitochondrion transfer between single cancer and T cells☆22Updated last year
- Multi-resolution Variational Inference☆22Updated 2 weeks ago