BodenmillerGroup / imcRtools
An R package for handling and analysing imaging mass cytometry data
☆21Updated 3 weeks ago
Related projects ⓘ
Alternatives and complementary repositories for imcRtools
- Spatial transcriptomics analyses and decoding in R☆18Updated 2 months ago
- A manually curated database of literature-supported ligand-receptor interactions in human and mouse☆26Updated 4 months ago
- characterizing spatial gene expression heterogeneity in spatially resolved single-cell transcriptomics data with nonuniform cellular dens…☆59Updated 2 years ago
- SCDC☆42Updated last year
- AnnData interoperability in R☆58Updated this week
- ☆47Updated last year
- A unified interface to spatial transcriptomics deconvolution tools☆36Updated 2 weeks ago
- Cell type pipes for R☆51Updated 9 months ago
- Using self-organizing maps for visualization and interpretation of cytometry data☆25Updated 4 months ago
- Trajectory inference across multiple conditions with condiments: differential topology, progression, differentiation, and expression☆25Updated last month
- ☆18Updated last year
- Repository for "Effective methods for bulk RNA-seq deconvolution using scRNA-seq and snRNA-seq derived transcriptomes"☆12Updated last year
- The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This al…☆33Updated 9 months ago
- Mosaic single cell data integration using non-overlapping features☆34Updated 2 years ago
- Aligning gene expression trajectories of single-cell reference and query systems☆46Updated last month
- R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data☆24Updated 5 months ago
- ☆39Updated 3 years ago
- Unsupervised Inference of Developmental Directions for Single Cells☆21Updated 10 months ago
- ☆12Updated last year
- Single-Cell Sequencing Quality Control and Processing Software☆30Updated 5 years ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆50Updated last month
- NicheDE is a method that detects context dependent changes in gene expression in spatial transcriptomic data.☆15Updated last month
- Cluster Identity Predictor (R package implementation)☆18Updated 2 years ago
- Identify genes with spatial expression trends in single-cell gene expression data☆49Updated 6 years ago
- Trajectory inference and differential expression over multiple conditions in scRNA-seq☆25Updated 3 years ago
- UniCell Deconvolve - Cloud Cell Type Deconvolution For Transcriptomic Data☆20Updated last year
- An R framework for choosing clustering parameters in scRNA-seq analysis pipelines☆32Updated 4 years ago
- General notes and resources on how to analyze Spatial Transcriptomics data☆12Updated last year
- ☆12Updated last year
- R package for detection of cell-cell interaction using Non-negative Tensor Decomposition☆32Updated last year