immunogenomics / LISI
Methods to compute Local Inverse Simpson's Index (LISI)
☆61Updated 3 years ago
Alternatives and similar repositories for LISI:
Users that are interested in LISI are comparing it to the libraries listed below
- ☆116Updated 3 years ago
- Analysis of cell-cell communication at single-cell resolution☆100Updated 7 months ago
- Gene signature extraction and cell-identity recognition at individual cell level from single-cell RNA-seq.☆94Updated last year
- 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
- inferring cell-cell communication from scRNA-seq of ligand-receptor☆79Updated last year
- ☆60Updated 5 years ago
- A python-based package and software to predict metabolite mediated cell-cell communications by single-cell RNA-seq data☆72Updated 5 months ago
- Code repository for the Tumor Immune Cell Atlas (TICA) project☆61Updated 3 years ago
- Methods to discover gene programs on single-cell data☆113Updated last month
- Efficient and precise single-cell reference atlas mapping with Symphony☆104Updated 2 years ago
- ☆46Updated 2 years ago
- Snakemake pipeline that works with the scIB package to benchmark data integration methods.☆71Updated 3 months ago
- Niche Interactions and Cellular Heterogeneity in Extracellular Signaling☆52Updated 7 months ago
- Clone Calling from Visium Spatial Transcriptomics of Cancer samples☆63Updated 2 years ago
- STARTRAC(Single T-cell Analysis by Rna-seq and Tcr TRACking)☆100Updated last year
- R package for semi-supervised single-cell data integration☆81Updated last month
- pycisTopic is a Python module to simultaneously identify cell states and cis-regulatory topics from single cell epigenomics data.☆68Updated 2 weeks ago
- Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease☆93Updated 3 years ago
- ☆49Updated 6 months ago
- Single-cell disease relevance score (scDRS)☆127Updated 6 months ago
- ☆50Updated 7 months ago
- R package for pathway analysis in scRNA-seq data☆73Updated 8 months ago
- A tool for semi-automatic cell type harmonization and integration☆102Updated last month
- Python implementation of Milo for differential abundance testing on KNN graph☆67Updated 2 months ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆77Updated 7 months ago
- Single Cell Cluster Evaluation☆94Updated 3 years ago
- Inference of RNA velocity modules for prediction of cell fates and integration with spatial and regulatory models.☆72Updated last month
- Python package for analysis of multiomic single cell RNA-seq and ATAC-seq.☆61Updated 11 months ago
- Metacells - Single-cell RNA Sequencing Analysis☆104Updated 6 months ago
- marker-based purification of cell types from single-cell RNA-seq datasets☆109Updated 2 months ago