Automatically annotate cell types, consistently across samples.
☆27Aug 24, 2026Updated this week
Alternatives and similar repositories for cell-annotator
Users that are interested in cell-annotator are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- k-NN-based mapping of cells across representations to transfer labels, embeddings, and expression values.☆16Updated this week
- Single-cell differential expression☆19Apr 23, 2026Updated 4 months ago
- https://sparrow-pipeline.readthedocs.io/en/latest/☆34Updated this week
- Fast array utilities☆15Updated this week
- Configure Vitessce using existing Scverse plotting APIs☆25Aug 7, 2026Updated 3 weeks ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- a cutting-edge cell segmentation model specifically designed for single-molecule resolved spatial omics datasets. It addresses the challe…☆90May 25, 2026Updated 3 months ago
- Minibatch loading for on-disk anndata files, co-developed by Lamin Labs and scverse☆68Updated this week
- ☆17Aug 20, 2026Updated last week
- physics-informed neural network based method for solving single-cell population dynamics☆17Jun 23, 2026Updated 2 months ago
- Build contrasts for models defined with formulaic☆13Updated this week
- A Python toolkit for subcellular analysis of spatial transcriptomics data☆89Nov 16, 2025Updated 9 months ago
- Static plotting for spatialdata☆85Updated this week
- A user-friendly library that brings familiar DataFrame-style operations to AnnData objects with a simple and expressive API.☆18Aug 24, 2026Updated last week
- A Python implementation of the LEMUR algorithm for analyzing multi-condition single-cell RNA-seq data.☆28Jan 3, 2025Updated last year
- 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.
- scPortrait is a scalable toolkit to generate single-cell representations from raw microscopy images☆110Updated this week
- GraphCompass: Graph Comparison Tools for Differential Analyses in Spatial Systems☆39Jul 11, 2025Updated last year
- rapids-singlecell: GPU-accelerated framework for scRNA analysis☆394Updated this week
- ☆20Sep 19, 2025Updated 11 months ago
- Python package to perform enrichment analysis from omics data.☆292Updated this week
- Scalable framework for integrating single-cell omics with genetic data using AnnData.☆21Updated this week
- Single-cell spatial omics analysis that makes you happy!☆72Updated this week
- Python API and Jupyter widget for Vitessce☆67Aug 10, 2026Updated 2 weeks ago
- Multi-modal single cell analysis pipelines☆63Dec 11, 2025Updated 8 months ago
- 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.
- Vaeda method for computational doublet annotation☆20Feb 1, 2026Updated 6 months ago
- Implementation of multiplex Leiden for analysis of spatial omics data☆22Jul 7, 2026Updated last month
- ☆37Oct 10, 2025Updated 10 months ago
- Technology-invariant pipeline for spatial omics analysis that scales to millions of cells (Xenium / Visium HD / MERSCOPE / CosMx / PhenoC…☆291Updated this week
- Spatial and multiomic visualization and analysis library☆55Updated this week
- ☆38Aug 15, 2026Updated 2 weeks ago
- ☆100Updated this week
- Multimodal Data (.h5mu) implementation for Python☆132Updated this week
- Profile purification of single-cell spatial transcriptomics data☆54Jun 29, 2026Updated 2 months ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Graph-based foundation model for spatial transcriptomics data. Zero-shot spatial domain inference, batch-effect correction, and many othe…☆155Aug 21, 2026Updated last week
- Single-cell perturbation analysis☆337Updated this week
- ☆101Aug 11, 2026Updated 2 weeks ago
- Shadow objects for AnnData and MuData (experimental)☆11Feb 28, 2025Updated last year
- ☆22Aug 25, 2022Updated 4 years ago
- Flow & mass cytometry analytics.☆60Updated this week
- A Snakemake pipeline for Xenium data analysis.☆28Jul 22, 2026Updated last month