Amplicon-Based Analysis
In the Amplicon-Based Analysis folder you will find tools for analyzing amplicon data.
With OTU Clustering and accompanying OTU tools, you can cluster reads at e.g. 97% similarity, into so-called Operational Taxonomic Units (OTUs).
Detect Amplicon Sequence Variants offers a higher resolution alternative. It uses error profiling to distinguish biological nucleotide differences from sequencing errors.
Template workflows for amplicon-based analysis are available at:
Toolbox | Template Workflows (
) | Microbial Workflows (
) | Metagenomics (
) | Amplicon-Based Analysis (
)
For more information on the template workflows, see Amplicon-Based Analysis Template Workflows.
Subsections
- Normalize OTU Table by Copy Number
- Filter Samples Based on Number of Reads
- OTU clustering
- Remove OTUs with Low Abundance
- Align OTUs with MUSCLE
- Detect Amplicon Sequence Variants
- Classify Long Read Amplicons