Welcome to Circular Genome Tools’s documentation!

Readme File

Circular genome tools (cgt)

A sage package for working with circular genomes represented by signed or unsigned permutations. It includes tools for converting between representations as well as visualisations using matplotlib.

To install and use this package, paste the following command in your terminal

sage -pip install cgt

and use import cgt in a sage script or environment.

If you would like to contribute to cgt, please see ``CONTRIBUTING.md` <https://github.com/js51/Circular-genome-tools/blob/121f055b003be36abed7598cffcde6b01afee56a/CONTRIBUTING.md>`_ for how to get set up.

Note: you will need to at least have Sage version 9.0 installed, and have the GAP package repsn installed for the copy of GAP that sits inside Sage. If you aren’t sure how to do this, see the installation instructions in ``INSTALL.md` <https://github.com/js51/Circular-genome-tools/blob/a006bb522c370ec46831dd202c1a67b47ba72726/INSTALL.md>`_.

Indices and tables