aertslab / SCENICprotocolLinks
A scalable SCENIC workflow for single-cell gene regulatory network analysis
☆171Updated 3 years ago
Alternatives and similar repositories for SCENICprotocol
Users that are interested in SCENICprotocol are comparing it to the libraries listed below
Sorting:
- scDIOR: Single cell data IO softwaRe☆153Updated 3 years ago
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆237Updated 2 years ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆179Updated 5 months ago
- reticulate-free single cell format conversion☆206Updated 2 weeks ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆245Updated 3 weeks ago
- single cell Flux Estimation Analysis (scFEA) Try the below web server!☆143Updated 2 years ago
- A guide to using a Seurat object in conjunction with RNA Velocity☆140Updated 4 years ago
- Detect doublets in single-cell RNA-seq data☆162Updated 5 years ago
- Scissor package☆250Updated last year
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆230Updated last year
- This repository contains R code, with which you can create 3D UMAP and tSNE plots of Seurat analyzed scRNAseq data☆122Updated 2 years ago
- CytoTRACE 2 is an interpretable AI method for predicting cellular potency and absolute developmental potential from scRNA-seq data.☆219Updated last month
- A tool for detecting somatic variants in single cell data☆215Updated last year
- A Bayesian model for compositional single-cell data analysis☆187Updated 3 weeks ago
- AUCell: score single cells with gene regulatory networks☆183Updated last year
- ☆269Updated 3 months ago
- ☆181Updated 9 months ago
- Quantifying metabolism activity at the single-cell resolution☆151Updated 7 months ago
- Significance analysis for clustering single-cell RNA-sequencing data☆123Updated last year
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆178Updated 10 months ago
- An R package to test for batch effects in high-dimensional single-cell RNA sequencing data.☆169Updated 2 years ago
- LIANA: a LIgand-receptor ANalysis frAmework☆230Updated last year
- Benchmarking computational single cell ATAC-seq methods☆184Updated 5 years ago
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆311Updated 3 years ago
- scATAC-seq data analysis tools and papers☆128Updated 7 months ago
- In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes☆121Updated 3 months ago
- Methods for detecting doublets in single-cell sequencing data☆230Updated last month
- Clustering scRNAseq by genotypes☆193Updated 2 months ago
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆180Updated last week
- CytoSPACE: Optimal mapping of scRNA-seq data to spatial transcriptomics data☆138Updated 11 months ago