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Update enformer-training.ipynb to show how to restore from checkpoint.

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PiperOrigin-RevId: 450894644
This commit is contained in:
Kyle Taylor
2022-05-25 12:37:13 +01:00
committed by alimuldal
parent 57456a001d
commit 11c2ab53e8
2 changed files with 625 additions and 319 deletions
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enformer/README.md
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@@ -120,8 +120,9 @@ df_targets.shape # (5313, 8) With rows match output shape above.
The model is implemented using [Sonnet](https://github.com/deepmind/sonnet). The
full sonnet module is defined in `enformer.py` called Enformer. See
[enformer-training.ipynb](https://colab.research.google.com/github/deepmind/deepmind_research/blob/master/enformer/enformer-training.ipynb).
on how to train the model on Basenji2 data.
[enformer-training.ipynb](https://colab.research.google.com/github/deepmind/deepmind_research/blob/master/enformer/enformer-training.ipynb)
on how to train the model on Basenji2 data and how to load the pre-trained
weights into the Enformer module for fine-tuning.
## Colab
@@ -143,6 +144,7 @@ This colab shows how to:
* Setup training data by directly accessing the Basenji2 data on GCS
* Train the model for a few steps on both human and mouse genomes
* Evaluate the model on human and mouse genomes
* Restore the model from a checkpoint for fine-tuning
## Disclaimer

938
enformer/enformer-training.ipynb
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