knowengdev/jupyter_notebooks repository overview

⁠Jupyter notebooks for transforming data files and running the pipelines

============

Install Docker Engine⁠

⁠Pull & start to run on your local machine.

Copy the connection token line into a browser URL window

Change to the notebooks directory in the jupyter home window.

⁠Select Run All in the "Cell" menu.

(or use link to how to use the Spreadsheets_Transformation notebook)

Production repositories included:

• https://github.com/KnowEnG/Samples_Clustering_Pipeline.git⁠
• https://github.com/KnowEnG/General_Clustering_Pipeline.git⁠
• https://github.com/KnowEnG/GeneSet_Characterization_Pipeline.git⁠
• https://github.com/KnowEnG/Feature_Prioritization_Pipeline.git⁠
• https://github.com/KnowEnG/Gene_Prioritization_Pipeline.git⁠
• https://github.com/KnowEnG/Spreadsheets_Transformation.git⁠

Note: Example notebooks fail if port | password for the gene name database is out of date. (Modify the yaml file to fix)