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Courses:

  • Welcome to Metagenomics 101 !
  • Welcome to the Metabarcoding Seminar !

Metagenomics 101 lectures:

  • Session 1: Overview
  • Session 2: Raw data & QC
  • Session 3: Read mapping part 1
  • Session 4: Taxonomy part 1
  • Session 5: Assembly
  • Session 6: Metagenome annotation
  • Session 7: Functional databases
  • Session 8: Functional profiles
  • Session 9: Genome reconstruction
  • Session 10: Genome-based taxonomy, genome and gene catalogues
  • Bonus lecture: Metatranscriptomics

Metagenomics 101 practicals:

  • Session 1: Test run
  • Session 2: Run preprocessing on toy data
  • Session 3: Run BWA, inspect and filter the output
  • Session 4: Run mOTUs2, MetaPhlan3, and kraken2
  • Session 5: Run assemblies in IMP3
  • Session 6: Run analysis / annotation in IMP3
  • Session 7: Take a look at annotations
  • Session 8: Counting reads and calculating profiles
  • Session 9: Run binning in IMP3

Metabarcoding seminar:

  • Metabarcoding seminar - 2024
  • Metabarcoding online seminar - 2022: Part 1
  • Metabarcoding online seminar - 2022: Part 2
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