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CSV and JSON Converter #9

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nutjob4life opened this issue Feb 19, 2025 · 1 comment

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nutjob4life commented Feb 19, 2025 •

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Develop a Python program that reads the biomarker database RDF and converts the information described about biomarkers into CSV and JSON formats.

The program should be run from the command-line and accepts the following flags:

--csv to generate comma-separated values (the default)
--json to generate JavaScript Object Notation (JSON)

In addition, it should accept a series of desired fields to include, such as alias, HgncName, description, qastate, etc.

The source RDF is available at these two endpoints:

For biomarkers: https://edrn.nci.nih.gov/rdf/biomarkers
For biomarker-organs: https://edrn.nci.nih.gov/rdf/biomarker-organs

A sample invocation would be:

convert-rdf --csv phase title alias > output.csv

The file output.csv would have 4 columns:

The internal biomarker ID number (always emitted)
Research phase of the biomarker
Title of the biomarker
Known aliases of the biomarker

The text was updated successfully, but these errors were encountered:

nutjob4life assigned AshishMahabal

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nutjob4life commented Feb 19, 2025

@AshishMahabal could you review the above ticket? Does it sound like what we discussed at our meeting on 2025-02-19?

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