dylkot / cNMF
Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data
☆315Updated 2 weeks ago
Alternatives and similar repositories for cNMF:
Users that are interested in cNMF are comparing it to the libraries listed below
- A package to help convert different single-cell data formats to each other☆413Updated last year
- A tool for semi-automatic cell type classification☆345Updated 3 months ago
- Benchmarking analysis of data integration tools☆338Updated 2 months ago
- Reference mapping for single-cell genomics☆358Updated 3 weeks ago
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆343Updated 9 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
- ☆257Updated 4 months ago
- R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics☆367Updated 3 months ago
- NicheNet: predict active ligand-target links between interacting cells☆521Updated 3 weeks ago
- This is the alpha version of the CellOracle package☆341Updated 2 months ago
- SCENIC+ is a python package to build gene regulatory networks (GRNs) using combined or separate single-cell gene expression (scRNA-seq) a…☆209Updated last month
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆369Updated 2 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
- Differential expression analysis for single-cell RNA-seq data.☆196Updated 3 weeks ago
- ☆353Updated 3 years ago
- A toolkit of spatial transcriptomic analysis.☆225Updated this week
- CellRank: dynamics from multi-view single-cell data☆373Updated last month
- Scanpy Tutorials.☆206Updated this week
- Automatic Annotation on Cell Types of Clusters from Single-Cell RNA Sequencing Data☆226Updated last year
- R package to quantify and remove cell free mRNAs from droplet based scRNA-seq data☆266Updated 2 years ago
- High dimensional weighted gene co-expression network analysis☆385Updated last week
- R package for detecting doublets in single-cell RNA sequencing data☆448Updated last week
- tools and notes for spatial omics☆271Updated 3 weeks ago
- A toolkit for single-cell immune profiling☆328Updated this week
- Bench-marking classification tools for scRNA-seq data☆185Updated 2 years ago
- ☆226Updated 8 months ago
- Analysis Pipeline for Single Cell ATAC-seq☆314Updated last year
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆342Updated 2 weeks ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆361Updated 4 months ago
- Single cell RNA sequencing analysis course☆205Updated last week