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.
Monday 2-8 pm CET |
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 | |
Tuesday 2-8 pm CET |
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 | |
Wednesday
2-8 pm CET
|
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 | |
Thursday 2-8 pm CET |
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 | |
Friday 2-8 pm CET |
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 |