Reference mapping for single-cell genomics
☆401Mar 21, 2026Updated 3 weeks ago
Alternatives and similar repositories for scarches
Users that are interested in scarches are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- CellRank: dynamics from multi-view single-cell data☆437Apr 6, 2026Updated last week
- Benchmarking analysis of data integration tools☆409Sep 17, 2025Updated 6 months ago
- RNA Velocity generalized through dynamical modeling☆495Feb 25, 2026Updated last month
- Deep probabilistic analysis of single-cell and spatial omics data☆1,597Updated this week
- data and model repository for single-cell data☆136Dec 21, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- A tool for semi-automatic cell type classification☆466Mar 21, 2026Updated 3 weeks ago
- Panoramic stitching of single cell data☆296Jul 14, 2025Updated 9 months ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆425Apr 8, 2026Updated last week
- Single cell perturbation prediction☆340Dec 5, 2024Updated last year
- A Bayesian model for compositional single-cell data analysis☆194Jan 13, 2026Updated 3 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆388Jul 30, 2025Updated 8 months ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆185Mar 27, 2025Updated last year
- A package to help convert different single-cell data formats to each other☆462Feb 20, 2026Updated last month
- Efficient and precise single-cell reference atlas mapping with Symphony☆115Oct 31, 2025Updated 5 months ago
- Wordpress hosting with auto-scaling - Free Trial • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- R package for integrating and analyzing multiple single-cell datasets☆427Feb 4, 2026Updated 2 months ago
- A scanpy extension to analyse single-cell TCR and BCR data.☆247Updated this week
- 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
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆489Mar 17, 2026Updated 3 weeks ago
- ☆361Dec 9, 2021Updated 4 years ago
- Conversion between scRNA-seq objects☆204Jan 12, 2026Updated 3 months ago
- NicheNet: predict active ligand-target links between interacting cells☆636Nov 12, 2025Updated 5 months ago
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 5 months ago
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆379Oct 3, 2024Updated last year
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- This is the alpha version of the CellOracle package☆439Feb 3, 2026Updated 2 months ago
- Single-cell analysis in Python. Scales to >100M cells.☆2,408Updated this week
- Single-cell perturbation analysis☆303Apr 6, 2026Updated last week
- Fast, sensitive and accurate integration of single-cell data with Harmony☆633Updated this week
- muon is a multimodal omics Python framework☆266Mar 16, 2026Updated 3 weeks ago
- Interpretation of cell states using reference single-cell maps☆315Dec 19, 2025Updated 3 months ago
- Spatial Single Cell Analysis in Python☆560Apr 7, 2026Updated last week
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆427Mar 16, 2026Updated 3 weeks ago
- A toolkit for single-cell immune profiling☆366Apr 3, 2026Updated last week
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- DIALOGUE is a dimensionality reduction method that uses cross-cell-type associations to identify multicellular programs (MCPs) and map th…☆118Jan 22, 2024Updated 2 years ago
- Metacells - Single-cell RNA Sequencing Analysis☆121Sep 27, 2024Updated last year
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆427Mar 30, 2026Updated 2 weeks ago
- Single-cell Transcriptome and Regulome Analysis Pipeline☆307Mar 6, 2023Updated 3 years ago
- Single cell trajectory detection☆301Feb 14, 2026Updated 2 months ago
- Formalizing and benchmarking open problems in single-cell genomics☆427Nov 26, 2025Updated 4 months ago
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆223Apr 1, 2026Updated last week