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Westlake-AI / OpenBioSeq

This repo focuses on supervised and self-supervised bio-sequence representation learning
https://openbioseq.readthedocs.io/en/latest/
Apache License 2.0
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Refactoring and updating new features (v0.1.1) #1

Open Lupin1998 opened 2 years ago

Lupin1998 commented 2 years ago

Refactoring OpenBioSeq to v0.1.1 and supporting the following features:

  1. Refact code structures according to OpenMixup.
  2. Support the online document for OpenBioSeq (built on Read the Docs).
  3. Support new backbone architectures for both 1D and 2D sequences.
  4. Support more regression losses (Focal L1/L2 loss, Balanced L1 loss, Balanced MSE loss) and more regression metrics in the regression dataset.
  5. Update training settings and benchmarks to support self-supervised learning (SSL) methods (e.g., new methods and benchmark configs).
  6. Refine the setup for the local installation and PyPi release in setup.py and setup.cfg. View PyPi project of OpenBioSeq (commit https://github.com/Westlake-AI/OpenBioSeq).

We will release OpenBioSeq v0.1.1 after code refactoring.

Lupin1998 commented 1 year ago

Refine the setup for the local installation and PyPi release in MANIFEST.in, setup.py, and setup.cfg. View PyPi project of OpenBioSeq (commit https://github.com/Westlake-AI/OpenBioSeq/commit/d8c1c9a710e696313eaa490c65acf4f69aaa0be2).