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Advanced Topics
You can use DeepPhe-Viz to see the results of the system.
If you make changes to the system configuration, if you customize the system code, or if you change the formatting of the files you input to the system, you could use a text file comparison (diff) tool to see how your changes affect the system output.
The pipeline was developed using separate training and development sets from 8 corpora. The corpora included notes from 4 sites and 3 cancer types. There was also variation in note types and counts per patient in the corpora. Results of system evaluations are pending publication.
- Visit the DeepPhe-Viz project.
- Visit the Pages section of the sidebar on this page to see all the base DeepPhe system documentation.
Open the Pages section (above) to view all pages by title.
Installation
Windows
Mac
Linux
Known Issues
Quickstart
Windows Quickstart Tutorial
Mac Quickstart Tutorial
Command line-execution
Using DeepPhe-XN With Your Own Files
Input File Requirements
Configuring DeepPhe Phenotype Summarizer
Specifying and Interpreting Outputs
Example Files Description
Using DeepPhe-XN Visualizer
Additional Output File Types
Example File Data Specifics
About the DeepPhe Pipeline
Pipeline Description
Code Modules
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AE
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division
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section
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temporal
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CR
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filetree
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naaccr