Day 1 program

14:00-14:30 Introduction to the course idea and Instructors

14.30-15:15 Brief introduction about Metabarcoding concepts. What are we going to talk about?

15:15-15:25 Break

15:25-17:15 Experimental design part 1 - Presentation

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17:15-17:25 QA and Wrap-up

17:25-18:00 Break

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18:00-18:15 Lab’s bioinformatics tools

18:15-19:45 Introduction to the FASTQ format and file management (Including Linux refresher)

19:45-20:00 QA and Wrap-up

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Day 2 program

14:00-16:30 QC analysis and Loading data in Qiime

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16.30-17:30 Key concept: OTU or ASV

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16:30-16:40 Break

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17:40-18:40 Key concept: Denoising

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18:40-19:00 Long Break

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19:00-20:00 Practical Denoising - DADA2 in Qiime2

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Day 3 program

14:10 - 15:00 Key concept:Taxonomic assignment

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15.10 - 15:20 Break

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15:20 - 16:00 ITS sequence analysis

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16:00 - 16:30 Q&A

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16: 30 - 17:45 Practical: Taxonomy assignment: classify-sklearn and taxonomy data

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17:45 -18:15 Long Break

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18:15 -19:15 Key concept: Diversity Analysis

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19:15 - 19:50 Time for questions and discussion

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Day 4 program

14:00-14:30 Experimental design - part 2

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14.30-15:45 Alpha and Beta diversity with Qiime2

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15:45-16:00 Break

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16:00-17:30 Practical: Pipeline with R

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17:30-18:00 Long Break

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18:00 - 19:00 Differential Abundance

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19:00 - 20:00 Time for Practice

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Day 5 program - Draft

14:00 - 15:15 Practical: Case Study

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15.15 - 17:15 Groups expositions

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17:15 - 17:50 Break

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17:50 - 18.20

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18:20 - 20:00 QA

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