scanpy

Repository facts

Stars

2,590

Forks

797

Open issues and pull requests

556

Primary language

Python

License

BSD 3-Clause "New" or "Revised" License (BSD-3-Clause)

Owner

scverse · Organization

Created

Jan 29, 2017

Last push

Oct 15, 2026

Topics

• anndata
• bioinformatics
• data-science
• machine-learning
• python
• scanpy
• scverse
• transcriptomics
• visualize-data

Rank #2,975 of 9,507 in AI on GitHub, by stars. Data from the GitHub API, fetched Oct 18, 2026; star counts change daily. Stars measure popularity, not quality or safety, and a listing is not an endorsement. How this list is made

Related projects

Projects that share this one’s GitHub topics.

• 8,003

  Rank 8,003: cafferychen777/mLLMCelltype

  Cell type annotation for single-cell RNA-seq using multi-LLM consensus

  661 starsPythonMITLast push Sep 28, 2026

• 341

  Rank 341: plotly/dash

  Data Apps & Dashboards for Python. No JavaScript Required.

  24,457 starsPythonMITLast push Oct 15, 2026

• 4,141

  Rank 4,141: scverse/scvi-tools

  Deep probabilistic analysis of single-cell and spatial omics data

  1,713 starsPythonBSD-3-ClauseLast push Oct 15, 2026

• 1,486

  Rank 1,486: ashishpatel26/Tools-to-Design-or-Visualize-Architecture-of-Neural-Network

  Tools to Design or Visualize Architecture of Neural Network

  5,408 starsNo license file detectedLast push Aug 1, 2025

• 75

  Rank 75: scikit-learn/scikit-learn

  scikit-learn: machine learning in Python

  67,738 starsPythonBSD-3-ClauseLast push Oct 18, 2026

• 81

  Rank 81: keras-team/keras

  Deep Learning for humans

  64,375 starsPythonApache-2.0Last push Oct 16, 2026