Program

The online course will start everyday at 1 pm and will end at 8 pm (BERLIN TIME) from Monday to Friday. We will do 2 breaks of 15 mins and 1 break of 1 hour, as indicated below. We will keep the same structure of the face-to-face training.

Mon, Jun 1, 2020 Module Duration
  Lecture: General introduction 0:30:00
  Lecture: Introduction to microbial community multi'omics 0:45:00
  Lab: Google Cloud setup 0:30:00
  Lecture: KneadData 0:30:00
  Lab: KneadData 1:00:00
  Lecture: Taxonomic profiling (MetaPhlAn) 0:45:00
  Dinner break (1 hour) 1:00:00
  Lab: MetaPhlAn 1:00:00
  Lecture: Strain profiling 0:30:00
  Open discussion / questions / wrap-up 0:30:00
  End of day 0:00:00
     
Tue, Jun 2, 2020 Module Duration
  Morning Lab: GraPhlAn 1:00:00
  Lecture: Microbial community multi'omic study design 0:45:00
  Lab: PanPhlAn + StrainPhlAn 1:00:00
  Lecture: Functional profiling (HUMAnN + ShortBRED) 1:00:00
  Dinner break (1 hour) 1:00:00
  Lab: HUMAnN 1:00:00
  Lecture: HMP1+2 0:45:00
  Open discussion / questions / wrap-up 0:30:00
  End of day 0:00:00
     
Wed, Jun 3, 2020 Module Duration
  Morning Lab: ShortBRED 1:00:00
  Lecture: Metagenomic assembly 1:00:00
  Lab: MEGAHIT + PROKKA 1:00:00
  Lecture: Binning + PhyloPhlAn 1:00:00
  Dinner break (1 hour) 1:00:00
  Lecture: LGT in microbiomes (WAAFLE) 0:30:00
  Lab: WAAFLE 1:00:00
  Open discussion / questions / wrap-up 0:30:00
  End of day 0:00:00
     
Thu, Jun 4, 2020 Module Duration
  Morning Lab: PhyloPhlAn 1:00:00
  Lecture: Statistics for metagenomics 1:00:00
  Lab: MaAsLin2 1:00:00
  Lecture: Methods for multi'omic data integration 0:45:00
  Dinner break (1 hour) 1:00:00
  Lab: High-dimensional testing 1:00:00
  Lecture: Microbiome epidemiology 0:45:00
  Open discussion / questions / wrap-up 0:30:00
  End of day 0:00:00
     
Fri, Jun 5, 2020 Module Duration
  Morning Lab: bioBakery workflows 1:00:00
  Lecture: Metagenomic data visualization 1:00:00
  Lab: Metagenomic visualizations 1:00:00
  Lecture: Reproducibility in microbiome studies (MBQC + workflows) 1:00:00
  Dinner break (1 hour) 1:00:00
  Open discussion / questions / wrap-up (long) 2:00:00
  End of day 0:00:00