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nf-ducken
Workflow to process amplicon meta-analysis data, from NCBI accession IDs to taxonomic diversity metrics.
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Optimize VSEARCH parameters
#41
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lina-kim
opened
2 years ago
lina-kim
commented
2 years ago
Cross-reference low VSEARCH hits from ECAM and MSK datasets?
Host 16S? Contamination? mt16S in diet? Index hopping?
Nick: “85% [identity] is quite low for a gut cohort”
Use consensus or confidence threshold? Weight by confidence in a given type?
Cross-reference low VSEARCH hits from ECAM and MSK datasets?