RNA_Reactivity_Prediction

Step 1: (OPTIONAL)data

** This step is only necessary if you want to preprocess the data yourself. Otherwise, go to next step. ** you can access data via thishttps://www.kaggle.com/competitions/stanford-ribonanza-rna-folding/data kaggle competition and place it in DATA directory.

Step 2: Preprocessed Data

Download the data form Kaggle and place it in your path/to/RNA_reactivity_predition

Step 3: Create Conda Env and Install Requirements

cd path/to/project
conda create -n rna-reactivity-prediction
conda activate rna-reactivity-prediction
pip install -r requirements.txt

Step 4: utils.py

Uncomment the functions in utils.py and run the script.

Step 4: Change the variable

in train_config.json , test_config.json ** TO BE IMPLEMENTED, FOR NOW GO WITH THE DEFULT SETTING, OR CHANGE MANUALLY**

Step 5: Run the script

python script.py -m {model_name:str} -e {epoch_number:int} -v {mode_vesion_ number}