Friday 27th Nov
| Time |
What |
| 09:30 |
Symposium |
| 10:30 |
Break |
| 10:45 |
Experimental Design |
| 11:00 |
QC and Denoising/Clustering |
| 12:15 |
Lunch |
| 13:00 |
Taxonomy Assignment |
| 14:30 |
Afternoon Tea |
| 14:45 |
Statistical Analysis |
| 16:15 |
Course Summary |
| 16:30 |
End of Day |
Experimental Design of eDNA Projects
Learning objectives:
- Choosing a target gene
- Sample collection
- Library preparation
- Avoiding contamination
QC and Denoising/Clustering of Samples
Learning objectives:
- Demultiplexing and quality filtering of NGS amplicon data
- Dereplicate sequences and sort by abundance
- Create representative sequences (OTUs/ASVs) from sample data
- Generate frequency table of each representative across all samples
Demultiplexing and Quality filtering
Denoising/Clustering
Taxonomy Assignment
Learning objectives:
- Choosing and preparing a reference database
- Alignment methods for species determination
- Machine-learning methods for species determination
- Graphing species composition
Taxonomy Assignment
Statistical analyses of eDNA results
Learning objectives:
- Rarefaction of samples
- Alpha and Beta diversity measures
- Alignment and phylogeny of representative sequences
- Differential abundance of taxa across samples
- Plotting results: PCA, heatmap, etc.
Statistical Analysis