Metagenomics Tutorial (Long Running) Answers - LangilleLab/microbiome_helper GitHub Wiki
These are the answers to the questions from the Metagenomics Tutorial
Taxonomic section:
- 30
- 10
- 200,000/sample
- MetaPhlAn version 2.1.0 (28 April 2015)
- s__Neisseria_unclassified 7.76249
- SRS015044: p__Actinobacteria & SRS015893: p_Firmicutes
- Phylum Candidatus_Saccharibacteria, Present only in sample SRS015044
- SRS015044 supragingival plaque
- metaphlan_out
- Yes, there is separation between the tongue samples and the plaque samples but there appears to be no separation between subgingival and supragingival. The separation occurs along PC1.
Functional section:
- SRS015893
- No
- 246 (KOs different across body sites)
- 16 (KEGG Pathways different across body sites)
- ko00281: Geraniol degradation . corrected p-value: 5.19e-6
- 22
- Higher in the tongue samples.
- Should look like this: