dylkot / cNMFLinks
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
☆355Updated 5 months ago
Alternatives and similar repositories for cNMF
Users that are interested in cNMF are comparing it to the libraries listed below
Sorting:
- A package to help convert different single-cell data formats to each other☆434Updated last year
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆382Updated 2 weeks ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆343Updated last year
- A tool for semi-automatic cell type classification☆394Updated last month
- ☆271Updated 8 months ago
- This is the alpha version of the CellOracle package☆370Updated 6 months ago
- NicheNet: predict active ligand-target links between interacting cells☆558Updated last week
- R package for integrating and analyzing multiple single-cell datasets☆417Updated last week
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆527Updated last month
- ☆356Updated 3 years ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆370Updated last month
- tools and notes for spatial omics☆311Updated 5 months ago
- Scanpy Tutorials.☆219Updated this week
- A toolkit of spatial transcriptomic analysis.☆257Updated last month
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆289Updated 2 years ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆231Updated 6 months ago
- SCENIC is an R package to infer Gene Regulatory Networks and cell types from single-cell RNA-seq data.☆463Updated last year
- RNA Velocity generalized through dynamical modeling☆454Updated 5 months ago
- CellRank: dynamics from multi-view single-cell data☆393Updated 3 months ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆415Updated last month
- LIANA+: an all-in-one framework for cell-cell communication☆223Updated 3 weeks ago
- Benchmarking analysis of data integration tools☆373Updated 6 months ago
- Single sample Gene Set Enrichment analysis (ssGSEA) and PTM Enrichment Analysis (PTM-SEA)☆291Updated 2 weeks ago
- High dimensional weighted gene co-expression network analysis☆423Updated 3 weeks ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics☆438Updated last month
- Reference mapping for single-cell genomics☆375Updated last week
- Single cell RNA sequencing analysis course☆220Updated 3 months ago
- Community-provided extensions to Seurat☆340Updated 8 months ago
- Panoramic stitching of single cell data☆286Updated 3 weeks ago
- EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.☆206Updated last year