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Completed reproduction experiment howto.
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@@ -74,13 +74,14 @@ Want to reproduce the results in our paper? You can find all the data in the `da
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## Electronic Laboratory Notebook (ELN) Experiment
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To reproduce the experiments on the electronic laboratory notebook (ELN) data:
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1. Encode the data using the script `encode_az_reactions.py`. This will write the files `az-2048-3-true.pkl` and `az-2048-3-true.pkl.gz` to the folder `data/az`.
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1. Clone this repository `git clone git@github.com:reymond-group/drfp.git`
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3. Install drfp either using `pip install drfp` or in the cloned directory using `pip install .`. Note that the latter will install the current development version of drfp.
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4. Encode the data using the script `encode_az_reactions.py`. This will write the files `az-2048-3-true.pkl` and `az-2048-3-true.pkl.gz` to the folder `data/az`.
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```bash
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cd scripts
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python encoding/encode_az_reactions.py
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```
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2. Train and test the xgboost model using the script `yield_prediction_az.py` (or `yield_prediction_az_rf.py` for the random forest model):
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4. Train and test the xgboost model using the script `yield_prediction_az.py` (or `yield_prediction_az_rf.py` for the random forest model):
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```bash
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python training/yield_prediction_az.py
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python training/yield_prediction_az_rf.py

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