Metadata-Version: 2.4
Name: precellar
Version: 0.4.0
Classifier: Programming Language :: Rust
Classifier: Programming Language :: Python :: Implementation :: CPython
Classifier: Programming Language :: Python :: Implementation :: PyPy
Requires-Dist: pooch==1.8
License-File: LICENSE
Summary: precellar: Single-cell epigenomics preprocessing toolkit
Author-email: Kai Zhang <zhangkai33@westlake.edu.cn>
Requires-Python: >=3.9, <3.14
Description-Content-Type: text/markdown; charset=UTF-8; variant=GFM
Project-URL: Homepage, https://lab.kaizhang.org/precellar/
Project-URL: Documentation, https://lab.kaizhang.org/precellar/
Project-URL: Repository, https://github.com/regulatory-genomics/precellar
Project-URL: Issues, https://github.com/regulatory-genomics/precellar/issues
Project-URL: Changelog, https://lab.kaizhang.org/precellar/version/dev/changelog.html

# Single-cell genomics preprocessing package

This tool is an automated pipeline for preprocessing single-cell genomics data.
It is designed to take raw data (fastq files) from a variety of single-cell genomics
platforms and a seqspec file as input, and output a count matrix (RNA) or a fragment file (ATAC)
for downstream analysis. The seqspec files for common platforms can be found here: https://github.com/IGVF/seqspec.

## Installation

### Stable version

```
pip install precellar
```

### Development version

```
pip install 'git+https://github.com/regulatory-genomics/precellar.git#egg=precellar&subdirectory=python'
```

For more information, please refer to the documentation: https://lab.kaizhang.org/precellar/.
