Vector Space Construction for the Microbiome
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compounds_to_add.tsv
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T09:49:19-07:00

create_vector_space.py
Aug 8, 2018
Author: Emily Mallory
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drug_metabolite_data.tsv
Aug 8, 2018
Author: Emily Mallory
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full_compounds_to_smiles.p
Aug 8, 2018
Author: Emily Mallory
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primary_reactions_data.tsv
Aug 8, 2018
Author: Emily Mallory
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query_vector_space.py
Aug 8, 2018
Author: Emily Mallory
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run_vs.sh
Aug 8, 2018
Author: Emily Mallory
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uniq_smiles_final_results_maccs.p
Aug 8, 2018
Author: Emily Mallory
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psb_final_results

final_results

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compounds_to_types.p
Aug 8, 2018
Author: Emily Mallory
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.DS_Store
Aug 8, 2018
Author: Emily Mallory
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eig_maccs_diff_vecs.p
Aug 8, 2018
Author: Emily Mallory
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eig_maccs_kmeans_vecs.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:53-07:00

full_compounds_to_smiles.p
Aug 8, 2018
Author: Emily Mallory
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index_to_comp.p
Aug 8, 2018
Author: Emily Mallory
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indices_to_compounds.p
Aug 8, 2018
Author: Emily Mallory
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README_missing_files.txt
Aug 8, 2018
Author: Emily Mallory
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smiles_indices_maccs.p
Aug 8, 2018
Author: Emily Mallory
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smiles_to_reacts_maccs.p
Aug 8, 2018
Author: Emily Mallory
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X_mol_50_maccs.p
Aug 8, 2018
Author: Emily Mallory
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cluster_assn

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kmeans_all_eig_10.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:47-07:00

kmeans_all_eig_11.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_12.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_13.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_14.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_15.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:48-07:00

kmeans_all_eig_20.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_25.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_30.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_32.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_35.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_3.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_40.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:48-07:00

kmeans_all_eig_45.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:48-07:00

kmeans_all_eig_4.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:48-07:00

kmeans_all_eig_50.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:48-07:00

kmeans_all_eig_5.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:48-07:00

kmeans_all_eig_6.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

kmeans_all_eig_7.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

kmeans_all_eig_8.txt
Aug 8, 2018
Author: Emily Mallory
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kmeans_all_eig_9.txt
Aug 8, 2018
Author: Emily Mallory
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reacts_all_eig_10.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

reacts_all_eig_11.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

reacts_all_eig_12.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

reacts_all_eig_13.txt
Aug 8, 2018
Author: Emily Mallory
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reacts_all_eig_14.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

reacts_all_eig_15.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

reacts_all_eig_20.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:49-07:00

reacts_all_eig_25.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_30.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_32.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_35.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_3.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_40.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_45.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_4.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_50.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_5.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:50-07:00

reacts_all_eig_6.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

reacts_all_eig_7.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

reacts_all_eig_8.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

reacts_all_eig_9.txt
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

cluster_obj

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kmeans_clusterer_10.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

kmeans_clusterer_11.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

kmeans_clusterer_12.p
Aug 8, 2018
Author: Emily Mallory
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kmeans_clusterer_13.p
Aug 8, 2018
Author: Emily Mallory
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kmeans_clusterer_14.p
Aug 8, 2018
Author: Emily Mallory
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kmeans_clusterer_15.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

kmeans_clusterer_20.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

kmeans_clusterer_25.p
Aug 8, 2018
Author: Emily Mallory
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kmeans_clusterer_30.p
Aug 8, 2018
Author: Emily Mallory
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kmeans_clusterer_32.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:51-07:00

kmeans_clusterer_35.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_3.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_40.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_45.p
Aug 8, 2018
Author: Emily Mallory
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kmeans_clusterer_4.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_50.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_5.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_6.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_7.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_8.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

kmeans_clusterer_9.p
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:52-07:00

plots

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kmeans_sil_10.png
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:57-07:00

kmeans_sil_11.png
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:57-07:00

kmeans_sil_12.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_13.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_14.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_15.png
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:57-07:00

kmeans_sil_20.png
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:57-07:00

kmeans_sil_25.png
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:58-07:00

kmeans_sil_30.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_32.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_35.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_3.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_40.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_45.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_4.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_50.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_5.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_6.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_7.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_8.png
Aug 8, 2018
Author: Emily Mallory
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kmeans_sil_9.png
Aug 8, 2018
Author: Emily Mallory
Uploaded by ZIP:2018-08-31T10:09:58-07:00

Uncategorized Submissions

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README vector space
Aug 8, 2018
Author: Emily Mallory
README file for computing vector space

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Last updated
Aug 31, 2018

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