Introduction¶

StripePy is a CLI application written in Python that recognizes architectural stripes found in the interaction matrix files generated by Chromosome Conformation Capture experiments, such as Hi-C and Micro-C.

Documentation formats¶

You are reading the HTML version of the documentation. An alternative PDF version is also available.

Installation¶

StripePy can be installed using pip or conda with e.g., pip install 'stripepy-hic[all]'. Refer to Installation for more details.

How to cite this project?¶

Please use the following BibTeX template to cite StripePy in scientific discourse:

@article{stripepy,
  author = {Raffo, Andrea and Rossini, Roberto and Paulsen, Jonas},
  title = {{StripePy: fast and robust characterization of architectural stripes}},
  journal = {Bioinformatics},
  volume = {41},
  number = {6},
  pages = {btaf351},
  year = {2025},
  month = {06},
  issn = {1367-4811},
  doi = {10.1093/bioinformatics/btaf351},
  url = {https://doi.org/10.1093/bioinformatics/btaf351},
  eprint = {https://academic.oup.com/bioinformatics/article-pdf/41/6/btaf351/63484367/btaf351.pdf},
}

Table of contents¶

Installation

Installation

Getting started

CLI and API Reference

Telemetry

Telemetry