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Running partial workflow #121

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AroneyS opened this issue Jan 17, 2024 · 1 comment
Open

Running partial workflow #121

AroneyS opened this issue Jan 17, 2024 · 1 comment
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@AroneyS
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AroneyS commented Jan 17, 2024

Is there a way to only run the marker identification and MSA? I do not need the downstream products.

@fasnicar fasnicar self-assigned this Feb 10, 2024
@fasnicar
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Hi there, not specifically as an option. You could though either (1) kill the job as soon as the MSA step is done, (2) edit the code to introduce a step right after the call of the msas() function, (3) in a separate script import PhyloPhlAn as a library and only call the gene_markers_identification(), gene_markers_selection(), gene_markers_extraction(), and msas() functions for your specific analysis.

I hope this helps.

Thanks,
Francesco

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