Scarf
Toolkit for highly memory efficient analysis of single-cell RNA-Seq, scATAC-Seq and CITE-Seq data. Analyze atlas scale datasets with millions of cells on laptop.
Install / Use
/learn @parashardhapola/ScarfREADME
.. raw:: html
<embed>
<p align="center">
<div align="center">
<a href="https://github.com/parashardhapola/scarf">
<img src="https://rawcdn.githack.com/parashardhapola/scarf/eefd75a0893a8903b8fcf8c51b5e7cb8e672a272/docs/source/logo_wide.png" alt="Scarf logo" width="600px" />
</a>
<h3>A framework for memory-efficient analysis of single-cell genomics data</h3>
</div>
</p>
<br />
<p align="center">
<a href="https://pypi.org/project/scarf">
<img src="https://img.shields.io/pypi/v/scarf.svg" alt="PyPiVersion" />
</a>
<a href="https://scarf.readthedocs.io">
<img src="https://readthedocs.org/projects/scarf/badge/?version=latest" alt="ReadTheDocs" />
</a>
<a href="https://github.com/parashardhapola/scarf/actions/workflows/pytest.yml">
<img src="https://github.com/parashardhapola/scarf/actions/workflows/pytest.yml/badge.svg" alt="TestStatus" />
</a>
<a href="https://codecov.io/gh/parashardhapola/scarf">
<img src="https://codecov.io/gh/parashardhapola/scarf/branch/master/graph/badge.svg?token=ZvJXuYq3pd" alt="TestCoverage" />
</a>
<a href="https://pepy.tech/project/scarf">
<img src="https://pepy.tech/badge/scarf" alt="PyPiDownloads" />
</a>
<a href="https://github.com/psf/black">
<img src="https://img.shields.io/badge/code%20style-black-000000.svg" alt="GitHub tweet" />
</a>
</p>
<h4 align="center">
<a href="https://scarf.readthedocs.io/en/latest/install.html"> 🔌 Installation</a> |
<a href="http://scarf.rtfd.io"> 📖 Documentation</a> |
<a href="https://scarf.readthedocs.io/en/latest/vignettes/basic_tutorial_scRNAseq.html"> 🚀 Getting started</a> |
<a href="https://www.nature.com/articles/s41467-022-32097-3">📝 Article in Nature Comm</a>
</h4>
<br />
<p align="center">
Install with all the dependencies:
<code style="background-color: #F0F0F0; padding: 2px 4px; border-radius: 4px; font-family: monospace;">pip install scarf[extra]</code>
</p>
<br />
<p align="center">
<strong>Need support?</strong> Create an issue <a href="https://github.com/parashardhapola/scarf/issues">on Github</a>.
</p>
</embed>
Related Skills
feishu-drive
342.0k|
things-mac
342.0kManage Things 3 via the `things` CLI on macOS (add/update projects+todos via URL scheme; read/search/list from the local Things database)
clawhub
342.0kUse the ClawHub CLI to search, install, update, and publish agent skills from clawhub.com
codebase-memory-mcp
1.1kHigh-performance code intelligence MCP server. Indexes codebases into a persistent knowledge graph — average repo in milliseconds. 66 languages, sub-ms queries, 99% fewer tokens. Single static binary, zero dependencies.
