CellRank: dynamics from multi-view single-cell data
☆437Apr 6, 2026Updated this week
Alternatives and similar repositories for cellrank
Users that are interested in cellrank are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- RNA Velocity generalized through dynamical modeling☆495Feb 25, 2026Updated last month
- Reference mapping for single-cell genomics☆401Mar 21, 2026Updated 2 weeks ago
- Python package to perform enrichment analysis from omics data.☆265Mar 30, 2026Updated last week
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆489Mar 17, 2026Updated 3 weeks ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆424Sep 4, 2025Updated 7 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- Deep probabilistic analysis of single-cell and spatial omics data☆1,591Updated this week
- A package to help convert different single-cell data formats to each other☆461Feb 20, 2026Updated last month
- trajectory inference☆107Jan 27, 2025Updated last year
- Single cell trajectory detection☆301Feb 14, 2026Updated last month
- Benchmarking analysis of data integration tools☆409Sep 17, 2025Updated 6 months ago
- Spatial Single Cell Analysis in Python☆559Mar 31, 2026Updated last week
- This is the alpha version of the CellOracle package☆438Feb 3, 2026Updated 2 months ago
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆594Jun 26, 2025Updated 9 months ago
- RNA velocity estimation in Python☆174Oct 7, 2025Updated 6 months ago
- NordVPN Special Discount Offer • AdSave on top-rated NordVPN 1 or 2-year plans with secure browsing, privacy protection, and support for for all major platforms.
- NicheNet: predict active ligand-target links between interacting cells☆636Nov 12, 2025Updated 4 months ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆427Mar 16, 2026Updated 3 weeks ago
- Multi-omic single-cell optimal transport tools☆199Mar 30, 2026Updated last week
- A tool for semi-automatic cell type classification☆464Mar 21, 2026Updated 2 weeks ago
- R package for integrating and analyzing multiple single-cell datasets☆427Feb 4, 2026Updated 2 months ago
- ☆146Mar 20, 2026Updated 2 weeks ago
- Panoramic stitching of single cell data☆296Jul 14, 2025Updated 8 months ago
- A scanpy extension to analyse single-cell TCR and BCR data.☆246Updated this week
- Spatial-eXpression-R: Cell type identification (including cell type mixtures) and cell type-specific differential expression for spatial …☆448Jan 22, 2026Updated 2 months ago
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- Convert between AnnData and SingleCellExperiment☆148Updated this week
- A Bayesian model for compositional single-cell data analysis☆194Jan 13, 2026Updated 2 months ago
- CellPhoneDB can be used to search for a particular ligand/receptor, or interrogate your own HUMAN single-cell transcriptomics data.☆470Jun 6, 2025Updated 10 months ago
- LIANA+: an all-in-one framework for cell-cell communication☆281Jan 24, 2026Updated 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…☆250Jan 16, 2026Updated 2 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆385Jul 30, 2025Updated 8 months ago
- TRAjectory-based Differential Expression analysis for SEQuencing data☆293Jun 17, 2025Updated 9 months ago
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 5 months ago
- MultiNicheNet: a flexible framework for differential cell-cell communication analysis from multi-sample multi-condition single-cell trans…☆184Aug 12, 2025Updated 7 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- ☆361Dec 9, 2021Updated 4 years ago
- Coarse-graining of large single-cell RNA-seq data into metacells☆98Feb 23, 2026Updated last month
- Metacells - Single-cell RNA Sequencing Analysis☆120Sep 27, 2024Updated last year
- Infer copy number variation (CNV) from scRNA-seq data. Plays nicely with Scanpy.☆185Updated this week
- LIANA: a LIgand-receptor ANalysis frAmework☆238Aug 7, 2024Updated last year
- Learning cell communication from spatial graphs of cells☆116Jan 15, 2024Updated 2 years ago
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆423Mar 30, 2026Updated last week