aertslab / SCENIC
SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.
☆445Updated last year
Alternatives and similar repositories for SCENIC:
Users that are interested in SCENIC are comparing it to the libraries listed below
- R package for detecting doublets in single-cell RNA sequencing data☆464Updated last month
- High dimensional weighted gene co-expression network analysis☆404Updated last month
- An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.☆487Updated 11 months ago
- NicheNet: predict active ligand-target links between interacting cells☆535Updated last week
- Inferring CNV from Single-Cell RNA-Seq☆609Updated 3 months ago
- A package to help convert different single-cell data formats to each other☆420Updated last year
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics☆394Updated 3 weeks ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆500Updated last year
- ☆261Updated 5 months ago
- ☆380Updated 4 months ago
- Community-provided extensions to Seurat☆330Updated 5 months ago
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆419Updated 2 months ago
- R package for integrating and analyzing multiple single-cell datasets☆412Updated this week
- A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…☆485Updated this week
- ☆354Updated 3 years ago
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆294Updated 4 years ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆386Updated 4 months ago
- A tool for semi-automatic cell type classification☆360Updated 2 weeks ago
- Analysis Pipeline for Single Cell ATAC-seq☆317Updated 2 years ago
- Useful functions to make your scRNA-seq plot more cool!☆335Updated 3 months ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆275Updated 2 years ago
- Scanpy Tutorials.☆212Updated last week
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆331Updated 2 months ago
- Tutorial for scRNA-seq data analysis beginners using R☆195Updated 2 months ago
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆363Updated 11 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆568Updated 5 months ago
- Table of software for the analysis of single-cell RNA-seq data.☆321Updated this week
- ☆231Updated 10 months ago
- A toolkit for single-cell immune profiling☆332Updated this week
- Single cell RNA sequencing analysis course☆211Updated last month