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.
☆209Updated 2 months ago
Alternatives and similar repositories for scenicplus:
Users that are interested in scenicplus are comparing it to the libraries listed below
- A tool for detecting somatic variants in single cell data☆193Updated 6 months ago
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆226Updated last year
- A scalable SCENIC workflow for single-cell gene regulatory network analysis☆151Updated 2 years ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆266Updated 2 years ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆140Updated 2 months ago
- Scissor package☆211Updated 10 months ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆156Updated 8 months ago
- A guide to using a Seurat object in conjunction with RNA Velocity☆137Updated 3 years ago
- scDIOR: Single cell data IO softwaRe☆140Updated 3 years ago
- Single-cell epigenomics analysis tools☆247Updated last week
- ☆162Updated 6 months ago
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆197Updated 11 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆314Updated 8 months ago
- scATAC-seq data analysis tools and papers☆104Updated last year
- Benchmarking computational single cell ATAC-seq methods☆182Updated 4 years ago
- Detect doublets in single-cell RNA-seq data☆143Updated 4 years ago
- ☆226Updated 8 months ago
- LIANA: a LIgand-receptor ANalysis frAmework☆196Updated 7 months ago
- A package to help convert different single-cell data formats to each other☆413Updated last year
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆161Updated last year
- Clustering scRNAseq by genotypes☆175Updated 4 months ago
- A tool for semi-automatic cell type classification☆346Updated 3 months ago
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆125Updated last month
- single cell Flux Estimation Analysis (scFEA) Try the below web server!☆118Updated last year
- ☆257Updated 4 months ago
- reticulate-free single cell format conversion☆131Updated 3 months ago
- Conversion between scRNA-seq objects☆164Updated this week
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆126Updated last month
- LIANA+: an all-in-one framework for cell-cell communication☆196Updated last month
- Quantifying metabolism activity at the single-cell resolution☆131Updated 7 months ago