Beta-Lactam Parsing - Githubissues

theiagen / public_health_bioinformatics

Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.

GNU General Public License v3.0

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Beta-Lactam Parsing #504

Closed sage-wright closed 3 months ago

sage-wright commented 3 months ago

:cool:

:pushpin: Explain the Request

Parse of beta-lacatmase genes from AMR report into own column (separate beta-lactam classes & genes as strings in their own columns)

Sub-classes of beta-lactams as their own columns, in addition to beta-lactam column
List of genes in columns, not the classes
- beta-lactam-_genes
- beta-lactam-_genes,
→ output these columns with an add_betalactam_outputs boolean flag
:books: Context

:chart_with_upwards_trend: Desired Behavior

:information_source: Additional Information