lesSDRF

This github repository contains the code used to create the lesSDRF application which is available via https://lessdrf.streamlit.app/ A manual on the tool in pdf format is available here: https://github.com/compomics/lesSDRF/blob/main/lesSDRF_manual.pdf

The parsed ontologies used in the streamlit app are in the data folder. Every topic contains three types of data:

• all_elements: a list of every term in the ontology subset. Is used to check for ontology compatibility of local metadata.
• dict: a nested dictionary that follows the ontology tree structure
• nodes: a node like version of the nested dictionary according to the format required for the tree-select module: https://github.com/Schluca/streamlit_tree_select

To start the app locally you run: ** streamlit run Home.py ** This will then open the Home screen of the app. The following steps can be found in the pages folder and are numbered accordingly.

Alternatively, during development, you can use docker compose to build and run the app using the watch feature locally:

docker compose watch

This will automatically sync file changes from your local machine to the docker container. Streamlit will automatically pick up file changes and will offer to reload the application.

Open your browser and go to http://localhost:8501 to see the app running.

lesSDRF v0.1.0 has the following ontologies incorporated:

Streamlit version 1.19.0 and Python version 3.9.13<br>

PRIDE CV (version 2022-11-17)<br>

PSI-MS (version 2022-09-26) and NCBITaxon (version 2022-08-18) in obo format<br>

CL (version 2022-12-25) and HANCESTRO (version 2.6) in OWL format<br>

and EFO (version 3.49.0) in JSON format. <br>