Cell Systems Publication Accompaniment

Major changes include:

1. Major overhaul to the underlying package structure.
2. Support for deriving encodings from ESM and ProtTrans.
3. Support for zero-shot prediction of combinatorial library fitness. Currently supported strategies are EVmutation, DeepSequence, and masked-token prediction with models from ESM and ProtTrans.
4. Script support for replicating simulated MLDE experiments.

Release to Make DOI for Record Keeping

This is the same as v0.0.0. This release is being made to link the repository to a permanent archive.

bioRxiv_Publication_Accompaniment

v0.0.0

Added publication link to README