Cooler is a Python support library for .cool files: an efficient storage format for high resolution genomic interaction matrices.

The cooler package aims to provide the following functionality:

  • Build contact matrices at any genomic resolution.
  • Query contact matrices.
  • Export and visualize the data.
  • Perform scalable out-of-core operations on the data.
  • Provide a clean and well-documented Python API to interact with the data.

Follow cooler development on GitHub.