File description missing for patient_day_embeddings_omics_omicsword2vec_lc.csv

[ElenaJolkver]

Hi,
I am trying to re-run the cancer code. In the script "grouped_embeddings_to_matrices.ipynb" you are loading the embeddings "patient_day_embeddings_omics_omicsword2vec_lc.csv". This embedding has not been described in "process_EHR_data_omics.ipynb" nor in "process_PT_data.ipynb". Can you share the code how patient_day_embeddings_omics_omicsword2vec_lc.csv was generated?
Thanks!
Elena

[ElenaJolkver]

Can you please also describe how you generated these files in the script "experiments.ipynb":
RNN_data_codes = np.load('/mnt/project/cancer_mortality_3yr_LARGER_data/RNN_data_omics_PTw2v_lc.npy')
RNN_data_outcomes = np.load('/mnt/project/cancer_mortality_3yr_LARGER_data/outcomes_omics_PTw2v_lc_3yr.npy')
RNN_data_lengths = np.load('/mnt/project/cancer_mortality_3yr_LARGER_data/visit_count_omics_PTw2v_lc.npy')
patient_indices = pd.read_csv('/mnt/project/cancer_mortality_3yr_LARGER_data/eid_indices_omics_PTw2v_lc.csv').drop('Unnamed: 0',axis=1)

They are also missing from the previous descriptions.