- refactored code for receptor preparation
- refactored core class, the `MoleculeSetup` and `RDKitMoleculeSetup`
- renamed `LinkedRDKitChorizo` to `Polymer`, and `ChorizoResidue` to `Monomer`
- several templates for nucleic acids
- automatically generate templates from the Chemical Component Dictionary (CCD)
- critical classes can be (de)serialized to/from JSON
- dropped openbabel, including the template option in mk_export.py
- handle alternate locations in receptor preparation
- export PDB of full receptor including docked positions of flexible sidechains
See the documentation at [meeko.readthedocs.io](https://meeko.readthedocs.io/)