Nanostring-Biostats / SpatialDecon
The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This algorithm also works in bulk expression profiling data.)
☆38Updated 4 months ago
Alternatives and similar repositories for SpatialDecon:
Users that are interested in SpatialDecon are comparing it to the libraries listed below
- ☆51Updated 2 years ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆67Updated 2 years ago
- ☆30Updated 4 months ago
- Aligning gene expression trajectories of single-cell reference and query systems☆64Updated 6 months ago
- marker-based purification of cell types from single-cell RNA-seq datasets☆110Updated last week
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆31Updated 10 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆52Updated last week
- A unified interface to spatial transcriptomics deconvolution tools☆41Updated 3 weeks ago
- R package for pathway analysis in scRNA-seq data☆73Updated 8 months ago
- ☆46Updated 2 years ago
- Inference of cell-cell communication from single-cell RNAseq data☆48Updated 2 weeks ago
- R package for semi-supervised single-cell data integration☆81Updated last month
- R package for Pathway RespOnsive GENe activity inference☆104Updated 2 years ago
- This repository is an exploratory resource to accelerate opensource analysis of CosMx® Spatial Molecular Imager (SMI) data. Contained her…☆64Updated this week
- ☆60Updated 4 years ago
- scGSVA: Perform GSVA for single cell RNA seq☆56Updated 5 months ago
- An R package for handling and analysing imaging mass cytometry data☆26Updated 6 months ago
- Identify genes with spatial expression trends in single-cell gene expression data☆50Updated 7 years ago
- ☆60Updated 5 years ago
- User-friendly tool to infer cell-cell interactions and communication from gene expression of interacting proteins☆60Updated 10 months ago
- Single-cell Lung Cancer Atlas with 1.2M cells☆62Updated 3 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆28Updated 5 months ago
- Principal analysis code used in for analysis of single cell RNAseq of primary untreated colon cancer. As described in: "Spatially organiz…☆39Updated 3 years ago
- Mollecular Functional Portraits☆40Updated last year
- Pan-Cancer Single Cell Classifier☆68Updated 11 months ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆30Updated 10 months ago
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆102Updated last week
- Trajectory inference and differential expression over multiple conditions in scRNA-seq☆24Updated 4 years ago
- Spatial transcriptomics analyses and decoding in R☆21Updated 2 months ago
- Single cell RNA-seq analysis bundle☆34Updated 5 years ago