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bio-microbiome-amplicon-processing

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Amplicon sequence variant (ASV) inference from 16S rRNA or ITS amplicon sequencing using DADA2. Covers quality filtering, error learning, denoising, and chimera removal. Use when processing demultiplexed amplicon FASTQ files to generate an ASV table for downstream analysis.

When to use

• 16S rRNA amplicon processing
• ITS amplicon processing
• ASV inference
• quality filtering
• error learning
• denoising
• chimera removal
• paired read merging

When not to use

• taxonomy assignment
• pre-DADA2 quality assessment
• diversity analysis

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