raphael-group / CalicoSTLinks
Inferring allele-specific copy number aberrations and tumor phylogeography from spatially resolved transcriptomics
☆41Updated 3 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 last year
- Single-Cell Analysis of Inter-Individual Variability by Interpretable Tensor Decomposition☆61Updated last year
- Aligning gene expression trajectories of single-cell reference and query systems☆73Updated last month
- ☆31Updated last month
- cell type specific, trait-associated gene regulation☆27Updated 5 months ago
- Cell age determination by scATAC-seq and bulk-ATAC-seq☆32Updated last year
- This repository contains scripts to identify healthy and malignant cells from scRNAseq with CloneTracer and process data from Optimized 1…☆26Updated 10 months ago
- Code to reproduce the analysis of "Decoding gene regulation in the mouse embryo using single-cell multi-omics""☆40Updated 3 years ago
- ☆30Updated 4 months ago
- RNA-velocity informed embeddings for visualizing cellular trajectories☆45Updated 3 years ago
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆32Updated last year
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆64Updated last week
- PhyloVelo, Phylogeny-based transcriptomic velocity of single cells☆43Updated last year
- We describe a transcriptional reference map of human natural killer (NK) cells based on analysis of scRNA-seq data from both blood and ti…☆12Updated 11 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆29Updated 9 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆56Updated 4 months ago
- ☆58Updated 2 months ago
- Independent Component Analysis decipher functional modules for better cell clustering and annotation☆17Updated 3 years ago
- ☆27Updated last week
- Multi-resolution Variational Inference☆22Updated 2 months ago
- ☆56Updated 2 weeks ago
- ☆20Updated 2 months ago
- All code associated with manuscript detailing scATAC and scRNA-seq following stimulus of PBMCs☆41Updated 2 years ago
- Gene regulatory network containing signed transcription factor-target gene interactions☆87Updated 3 months ago
- Code used to analyze single cell RNA and ATAC sequencing in developing human brain☆33Updated 3 years ago
- Mitochondrial Alteration Enrichment and Genome Analysis Toolkit☆21Updated last year
- A modular tool for proportion analysis in single-cell sequencing data☆23Updated this week
- ☆53Updated 2 years ago
- R package IReNA☆28Updated 10 months ago
- Covarying neighborhood analysis (CNA) is a method for finding structure in- and conducting association analysis with multi-sample single-…☆55Updated 3 months ago