Reference mapping for single-cell genomics
☆406Jun 26, 2026Updated last week
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☆454Updated this week
- Benchmarking analysis of data integration tools☆423Apr 27, 2026Updated 2 months ago
- RNA Velocity generalized through dynamical modeling☆506Feb 25, 2026Updated 4 months ago
- Deep probabilistic analysis of single-cell and spatial omics data☆1,649Jun 25, 2026Updated last week
- data and model repository for single-cell data☆136Dec 21, 2023Updated 2 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- A tool for semi-automatic cell type classification☆491May 22, 2026Updated last month
- Panoramic stitching of single cell data☆295Jul 14, 2025Updated 11 months ago
- R package implementation of Milo for testing for differential abundance in KNN graphs☆436May 11, 2026Updated last month
- Single cell perturbation prediction☆352Dec 5, 2024Updated last year
- A Bayesian model for compositional single-cell data analysis☆199Jan 13, 2026Updated 5 months ago
- CellBender is a software package for eliminating technical artifacts from high-throughput single-cell RNA sequencing (scRNA-seq) data.☆403Jun 16, 2026Updated 2 weeks ago
- SEACells algorithm for Inference of transcriptional and epigenomic cellular states from single-cell genomics data☆192Mar 27, 2025Updated last year
- A package to help convert different single-cell data formats to each other☆472Feb 20, 2026Updated 4 months ago
- Efficient and precise single-cell reference atlas mapping with Symphony☆123May 24, 2026Updated last month
- GPUs on demand by Runpod - Special Offer Available • AdRun AI, ML, and HPC workloads on powerful cloud GPUs—without limits or wasted spend. Deploy GPUs in under a minute and pay by the second.
- R package for integrating and analyzing multiple single-cell datasets☆431Feb 4, 2026Updated 5 months ago
- A scanpy extension to analyse single-cell TCR and BCR data.☆262Updated this week
- Inclusive model of expression dynamics with conventional or metabolic labeling based scRNA-seq / multiomics, vector field reconstruction …☆503Updated this week
- pySCENIC is a lightning-fast python implementation of the SCENIC pipeline (Single-Cell rEgulatory Network Inference and Clustering) which…☆617Jun 26, 2025Updated last year
- ☆364Dec 9, 2021Updated 4 years ago
- Conversion between scRNA-seq objects☆210May 5, 2026Updated last month
- NicheNet: predict active ligand-target links between interacting cells☆662Jun 1, 2026Updated last month
- Differential expression analysis for single-cell RNA-seq data.☆206Oct 21, 2025Updated 8 months ago
- MAGIC (Markov Affinity-based Graph Imputation of Cells), is a method for imputing missing values restoring structure of large biological …☆384Oct 3, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- Single-cell analysis in Python. Scales to >100M cells.☆2,501Updated this week
- Single-cell perturbation analysis☆334Updated this week
- This is the alpha version of the CellOracle package☆470Apr 30, 2026Updated 2 months ago
- Fast, sensitive and accurate integration of single-cell data with Harmony☆661Jun 5, 2026Updated 3 weeks ago
- muon is a multimodal omics Python framework☆272Jun 22, 2026Updated last week
- Spatial Single Cell Analysis in Python☆580Updated this week
- Interpretation of cell states using reference single-cell maps☆323Dec 19, 2025Updated 6 months ago
- Comprehensive mapping of tissue cell architecture via integrated single cell and spatial transcriptomics (cell2location model)☆445Jun 2, 2026Updated last month
- A toolkit for single-cell immune profiling☆371Jun 27, 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…☆122Jan 22, 2024Updated 2 years ago
- Metacells - Single-cell RNA Sequencing Analysis☆126Apr 20, 2026Updated 2 months ago
- Code and example data for running Consensus Non-negative Matrix Factorization on single-cell RNA-Seq data☆449Apr 11, 2026Updated 2 months ago
- Single-cell Transcriptome and Regulome Analysis Pipeline☆311Mar 6, 2023Updated 3 years ago
- Single cell trajectory detection☆322Apr 21, 2026Updated 2 months ago
- Formalizing and benchmarking open problems in single-cell genomics☆433Jun 3, 2026Updated last month
- R package for the joint analysis of multiple single-cell RNA-seq datasets☆228Updated this week