aertslab / scenicplus
SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) and single-cell chromatin accessibility (scATAC-seq) data.
☆186Updated 2 months ago
Related projects ⓘ
Alternatives and complementary repositories for scenicplus
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆143Updated last year
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆147Updated 4 months ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆123Updated 2 months ago
- A tool for detecting somatic variants in single cell data☆170Updated 2 months ago
- scDIOR: Single cell data IO softwaRe☆134Updated 2 years ago
- Scissor package☆188Updated 6 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆115Updated 6 months ago
- A guide to using a Seurat object in conjunction with RNA Velocity☆132Updated 2 years ago
- scATAC-seq data analysis tools and papers☆98Updated last year
- Clustering scRNAseq by genotypes☆168Updated this week
- ☆152Updated 2 months ago
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆184Updated 7 months ago
- Single-cell epigenomics analysis tools☆231Updated 3 weeks ago
- Detect doublets in single-cell RNA-seq data☆138Updated 3 years ago
- ☆102Updated 6 months ago
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆137Updated this week
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆154Updated 9 months ago
- ☆210Updated 4 months ago
- In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes☆96Updated 2 weeks ago
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆218Updated last year
- Quantifying metabolism activity at the single-cell resolution☆115Updated 3 months ago
- Benchmarking computational single cell ATAC-seq methods☆177Updated 3 years ago
- Significance analysis for clustering single-cell RNA-sequencing data☆100Updated 2 months ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆259Updated 2 years ago
- R package with collection of functions created and/or curated to aid in the visualization and analysis of single-cell data using R.☆216Updated this week
- A package to help convert different single-cell data formats to each other☆382Updated 8 months ago
- A Fully Bayesian Inference of Tumor Microenvironment composition and gene expression☆157Updated this week
- A tool for semi-automatic cell type classification☆296Updated 5 months ago
- Single-nuclei RNA-seq and ATAC-seq in Alzheimer's disease☆85Updated 3 years ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆297Updated 4 months ago