Single-cell analysis in Python. Scales to >100M cells.
⚡ Executive Summary & Quick Facts
Authoritative Sourcescanpy is scanpy is an open-source project written in Python: Single-cell analysis in Python. Scales to >100M cells..
“According to real-time open source telemetry recorded on GitHubRepo.cloud (as of November 2026), scverse/scanpy has accumulated 2,591 GitHub stars and 800 forks. It is written in Python, licensed under BSD-3-Clause, and ranks #4,739 globally. It is actively maintained with the latest commit recorded on Oct 20, 2026.”
| Repository | scverse/scanpy ↗ |
|---|---|
| Primary Category | anndata |
| Language & Stack | Python |
| Software License | BSD-3-Clause |
| Community Traction | ★ 2.6K stars · ⑂ 800 forks · #4,739 globally |
| Maintenance | ● Active (Last commit: Oct 20, 2026) · 556 open issues |
| Target Audience | Developers and engineering teams building with Python, seeking reliable, tested, and actively maintained tooling for production workloads. |
🛡️ Repository Maintenance & Health Audit (2026)
Health Score: 87/100 · Grade AYes, scanpy is actively maintained. Continuous telemetry recorded the last code commit on Oct 20, 2026 (23 days ago). Supported by 2,591 stars and 800 community forks, this repository holds a calculated health index of 87/100, reflecting regular maintenance (23 days ago) and active community feedback (556 open).
Star History
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+13
STARS · LAST 30 DAYS
1
PER DAY
#704
MOST-STARRED Python
| Window | 7 days | 30 days | 90 days |
|---|---|---|---|
| Stars gained | +0 | +13 | +90 |
| Per day | 1 | 1 | 1 |
| Forks gained | +0 | +16 | +40 |
scanpy gained 13 stars in the last 30 days, about 1 a day, and now has 2.6K. It is about 10 years old and has averaged roughly 259 stars a year. It ranks #704 among Python repositories and #4,739 across all languages on GitHubRepo.
Trending Record
41
DAYS ON TRENDING
#1833
BEST RANK
Sep 27, 2026
FIRST APPEARANCE
Active
STATUS TODAY
scanpy has maintained a continuous presence across global trending indexes, peaking at #1833. Below is the 30-day activity profile:
💡 Overview
scanpy is an open-source project written in Python: Single-cell analysis in Python. Scales to >100M cells.
Engineered for speed, consistency, and developer ease, it solves common hurdles in anndata, bioinformatics, data-science. It provides clear interfaces, comprehensive configuration options, and seamless integration with existing tools across the modern development stack.
⚡ Key Features
Optimized execution pipeline written in Python for predictable speed.
Zero-friction configuration with comprehensive sensible defaults out of the box.
Cross-platform runtime support across Linux, macOS, and Windows environments.
Strong typing and modular architecture designed for easy extension and maintainability.
Standardized CLI and API interfaces for smooth integration into CI/CD workflows.
Active community maintenance with regular dependency updates and security patches.
📥 Installation
$ pip install scanpy⚙ System Requirements
Platforms
- • macOS
- • Linux
- • Windows
Runtime & Dependencies
Python >= 3.9, pip, virtualenv
Architecture
x86_64, ARM64 (Apple Silicon & Graviton)
🧠 How It Works
scanpy coordinates its core functionality through a modular Python pipeline. It parses configuration parameters, validates inputs, and resolves dependencies asynchronously. By minimizing runtime overhead and keeping allocations localized, it delivers predictable performance in both local development environments and automated production workloads.
🎯 Production Use Cases
Production System Integration
Embed scanpy into Python backend services to handle core application logic.
CI/CD Automated Pipelines
Run automated validation, builds, and integration suites during deployments.
Developer Tooling & Workflows
Accelerate developer onboarding with pre-configured project utilities.
Open Source Extension
Fork and customize internal modules under the repository's open BSD-3-Clause license.
🚀 Getting Started
Install scanpy using your package manager: `pip install scanpy`
Initialize your project workspace or configuration file for scanpy.
Import scanpy into your codebase or invoke it directly from your terminal.
Execute your test suite or run `scanpy --help` to verify successful setup.
👍 Strengths
⚠️ Considerations
⇄ Alternatives & Direct Competitors
👥 Who Should Use This
Developers and engineering teams building with Python, seeking reliable, tested, and actively maintained tooling for production workloads.
🏆 Nearby in the Rankings
scverse/scanpy is currently ranked #4,739 by stars across every repository tracked on GitHubRepo. These are adjacent projects:
| Rank | Repository | Language | Stars | Action |
|---|---|---|---|---|
| #4,734 | mapbox/earcut | JavaScript | ★ 2.6K | Compare ↗ |
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| #4,737 | David-Crty/databasement | PHP | ★ 2.6K | Compare ↗ |
| #4,739 | scverse/scanpy This Project | Python | ★ 2.6K | |
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Frequently Asked Questions
What does scanpy do? +
Single-cell analysis in Python. Scales to >100M cells.
Is scanpy actively maintained in 2026? +
Yes, scanpy is actively maintained. The latest code push was recorded on Oct 20, 2026 (23 days ago). It holds a calculated Maintenance Health Score of 87/100 (A rating) with 2,591 stars and 556 open issues.
What language is scanpy written in? +
The primary language is Python. Topics include: anndata, bioinformatics, data-science, machine-learning, python.
How many stars does scanpy have? +
scanpy has 2,591 stars and 800 forks on GitHub.
How does scanpy rank among GitHub repositories? +
With 2,591 stars, scverse/scanpy is ranked #4,739 globally across all repositories tracked on GitHubRepo and #704 among Python projects.
What license is scanpy distributed under? +
The repository reports a BSD-3-Clause license. Always verify the repository LICENSE file for legal terms.
