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QC: Metadata input validation #14

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robinschmid opened this issue Oct 31, 2023 · 0 comments

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good first issue

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robinschmid commented Oct 31, 2023

Validate the metadata table

https://github.com/robinschmid/annotation_validation/blob/main/metadata_validator/metadata/nih_main_columns.tsv

This table is used to annotate compounds based on their neutral mass and structure (smiles/inchi)

First code currently lives in

https://github.com/robinschmid/annotation_validation/tree/main/metadata_validator

There are some definitions for column validation and formats here:

https://github.com/robinschmid/annotation_validation/blob/main/metadata_validator/metadata_validator.ipynb

Schema for validation of tables

pandera: https://pandera.readthedocs.io/en/stable/

all fields optional for now and decide later

robinschmid added the good first issue label

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