Update README.md

profile/README.md

@@ -5,17 +5,17 @@ Welcome to the Ligand Discovery Project's main codebase. This project is led by
 Below, you will find links to the repositories associated with the various components of the project:
 
 #### Data Analysis & Paper Figures
-- [**primary-paper-figures**](https://github.com/ligand-discovery/primary-paper-figures): Executable notebooks to produce the main paper figures.
-- [**interactome-signatures**](https://github.com/ligand-discovery/interactome-signatures): Executable notebooks for discovering interactome signatures from the primary screening data.
+- [**primary-paper-figures**](https://github.com/ligand-discovery/primary-paper-figures): Executable notebooks to produce the main paper figures. [DOI](https://zenodo.org/records/10838149).
+- [**interactome-signatures**](https://github.com/ligand-discovery/interactome-signatures): Executable notebooks for discovering interactome signatures from the primary screening data. [DOI](https://zenodo.org/records/10838089)
 
 #### Model Training
-- [**fragment-embedding**](https://github.com/ligand-discovery/fragment-embedding): Train and predict fully-functionalized fragment descriptors.
-- [**mini-automl**](https://github.com/ligand-discovery/mini-automl): Train small machine learning models using TabPFN. Includes scripts for promiscuity models and interactome signature models.
-- [**mini-xai**](https://github.com/ligand-discovery/mini-xai): Notebook for the Shapley value analysis.
+- [**fragment-embedding**](https://github.com/ligand-discovery/fragment-embedding): Train and predict fully-functionalized fragment descriptors. [DOI](https://zenodo.org/records/10838065)
+- [**mini-automl**](https://github.com/ligand-discovery/mini-automl): Train small machine learning models using TabPFN. Includes scripts for promiscuity models and interactome signature models. [DOI](https://zenodo.org/records/10838095)
+- [**mini-xai**](https://github.com/ligand-discovery/mini-xai): Notebook for the Shapley value analysis. [DOI](https://zenodo.org/records/10838141)
 
 #### Streamlit Apps
 - [**interactions**](https://github.com/ligand-discovery/interactions): explore screening data as a standalone application.
-- [**protein-profile-explorer**](https://github.com/ligand-discovery/protein-profile-explorer): Deploy the protein profile explorer (a.k.a. background checker).
-- [**protein-set-enrichment-analysis**](https://github.com/ligand-discovery/protein-set-enrichment-analysis): Deploy the protein set enrichment analysis.
-- [**fragment-predictor**](https://github.com/ligand-discovery/fragment-predictor): Deploy the fragment predictor based on promiscuity and interactome signature models.
-- [**on-the-fly-modeling**](https://github.com/ligand-discovery/on-the-fly-modeling): Simple app for on-demand modeling.
+- [**protein-profile-explorer**](https://github.com/ligand-discovery/protein-profile-explorer): Deploy the protein profile explorer (a.k.a. background checker). [DOI](https://zenodo.org/records/10838104)
+- [**protein-set-enrichment-analysis**](https://github.com/ligand-discovery/protein-set-enrichment-analysis): Deploy the protein set enrichment analysis. [DOI](https://zenodo.org/records/10838110)
+- [**fragment-predictor**](https://github.com/ligand-discovery/fragment-predictor): Deploy the fragment predictor based on promiscuity and interactome signature models. [DOI](https://zenodo.org/records/10838071)
+- [**on-the-fly-modeling**](https://github.com/ligand-discovery/on-the-fly-modeling): Simple app for on-demand modeling. [DOI](https://zenodo.org/records/10838098)