Metabarcoding analyses 2022
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Description
This course offers an introduction to metabarcoding analyses at two different levels/steps: bioinformatics with FROGS pipeline in the Galaxy environment, biostatistics with PhyloSeq R package. This includes preprocessing, clustering and OTU picking, taxonomic assignation, estimation of diversity, visualization of statistics results.
Prerequisites
Galaxy, R knowledge

Program
Introduction to metagenomics and metabarcoding
Pre-processing, Clustering, taxonomic affiliation (FROGS)
Handling and visualizing OTU table using PhyloSeq R package (PhyloSeq)


Learning objectives
Manipulate tools available for metabarcoding analysis
Study sample diversity by using NGS and post-NGS analysis tools
Visualize diversity metrics in metabarcoding approach​


Instructors
Julie Orjuela - julie.orjuela@ird.fr
Florentin Constancias - florentin.constancias@cirad.fr
Alexis Dereeper - alexis.dereeper@ird.fr