A Scanpy extension for analyzing single-cell immune-cell receptor sequencing data
Scirpy
Scirpy is a scalable python-toolkit to analyse T cell receptor (TCR) or B cell receptor (BCR) repertoires from single-cell RNA sequencing (scRNA-seq) data. It seamlessly integrates with the popular scanpy library and provides various modules for data import, analysis and visualization.
Getting started
Please refer to the documentation. In particular, the
In the documentation, you can also learn more about our immune-cell receptor model.
Case-study
The case study from our preprint is available here.
Installation
You need to have Python 3.7 or newer installed on your system. If you don’t have Python installed, we recommend installing Miniconda.
There are several alternative options to install scirpy:
- Install the latest release of scirpy from PyPI:
pip install scirpy