aertslab / pySCENIC
pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which enables biologists to infer transcription factors, gene regulatory networks and cell types from single-cell RNA-seq data.
☆477Updated 10 months ago
Alternatives and similar repositories for pySCENIC:
Users that are interested in pySCENIC are comparing it to the libraries listed below
- RNA Velocity generalized through dynamical modeling☆430Updated last week
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆364Updated last month
- R package for detecting doublets in single-cell RNA sequencing data☆445Updated last month
- NicheNet: predict active ligand-target links between interacting cells☆513Updated this week
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆435Updated 10 months ago
- ☆353Updated 3 years ago
- Analysis Pipeline for Single Cell ATAC-seq☆311Updated last year
- A package to help convert different single-cell data formats to each other☆409Updated last year
- This is the alpha version of the CellOracle package☆335Updated last month
- ☆368Updated last month
- ArchR : Analysis of Regulatory Chromatin in R (www.ArchRProject.com)☆403Updated 2 weeks ago
- Inferring CNV from Single-Cell RNA-Seq☆595Updated last month
- Scanpy Tutorials.☆202Updated this week
- A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter) and mouse deconvolution method…☆482Updated last month
- A list of scRNA-seq analysis tools☆671Updated 2 months ago
- Collections of library structure and sequence of popular single cell genomic methods☆452Updated 2 months ago
- An end-to-end Single-Cell Pipeline designed to facilitate comprehensive analysis and exploration of single-cell data.☆449Updated 9 months ago
- Benchmarking analysis of data integration tools☆334Updated last month
- Single cell RNA sequencing analysis course☆203Updated this week
- A toolkit for single-cell immune profiling☆326Updated 2 weeks ago
- scripts and notebooks from sanbomics☆390Updated 3 months ago
- SingleR: Single-cell RNA-seq cell types Recognition (legacy version)☆285Updated 4 years ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics☆359Updated 2 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆551Updated 3 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆308Updated 7 months ago
- 10x Genomics Single Cell Analysis☆386Updated 3 weeks ago
- Community-provided extensions to Seurat☆321Updated 3 months ago
- ENCODE ATAC-seq pipeline☆403Updated 7 months ago
- An overview of algorithms for estimating pseudotime in single-cell RNA-seq data☆416Updated this week
- Analysis of single cell RNA-seq data course☆130Updated 2 years ago