v1.2.0: nonredundant drawing, bug fixes, and cleaning up

Please see the new CHANGELOG.md file for a summary of this release.

v1.1.0: documentation and refactoring

• Add documentation to the README on patterns, boundary node splitting, etc.

• Lower default screenshot scaling factor from 5x to 2x

• Remove Dash Cytoscape as a dependency; replace it with custom JavaScript code that interfaces with Cytoscape.js (#362)

  • Now that we are no longer bound to Dash Cytoscape, this allowed us to upgrade the Cytoscape.js version in use to v3.31.4. This addresses #262.

• A few minor development improvements (e.g. using both license and license-files in the pyproject.toml file)

"Classic" MetagenomeScope

This is an old version of MetagenomeScope's code, tagged as a release for posterity. Many of its features will be added back in to newer versions of MetagenomeScope fairly soon, but some features (e.g. SPQR tree decomposition) may not be included in the new versions for some time (or at all) due to time constraints.