Figure S3. Species detected ≥ 2.5% relative abundance in kefir samples using each species classifier with the total number of reads from each sequencer. (PNG 96 kb
Counts for spectra assigned at the species level by the MEGAN5 LCA. Each row lists spectral counts a...
Table S7. Summary of selected protein families (Pfam) based on rpstblastx algorithm. (PDF 410 kb
Supplementary tables. Supplementary Table S1. Bacterial abundances in Simulation 1 (high-diversity c...
Figure S4. (A) The consensus taxonomic profile of kefir samples, as predicted by averaging the resul...
Figure S2. False positives detected using each species classifier with the total number of reads fro...
Figure S6. Dissimilarity plot based on the relative abundances of the 865 level-4 enzyme commission ...
Table S4. Statistical differences in alpha diversity at different sequencing depths. (XLSX 10Â kb
Table S5. Statistical differences in the relative abundances of enzyme commission (EC) level-4 categ...
Figure S8. SUPER-FOCUS level 2 subsystems which were significantly altered at different sequencing d...
Background The use of shotgun metagenomics to analyse low-complexity microbial commu...
Relative abundance of intestinal microbiome (species level classification of OTUs). (XLSX 2182 kb
Figure S6. Taxonomic composition of bacterial mock community samples pre-filtering (a) and post-filt...
Table S5. a Prokaryotic OTUs distribution in samples. b Methanotropic OTUs distribution in samples (...
Comparison of the effect of OTU picking method on the proportion of OTUs cultured. Figure S2 Compari...
Table S1. PERMANOVA analysis used to assess microbial community structure differences. Table S2. Med...
Counts for spectra assigned at the species level by the MEGAN5 LCA. Each row lists spectral counts a...
Table S7. Summary of selected protein families (Pfam) based on rpstblastx algorithm. (PDF 410 kb
Supplementary tables. Supplementary Table S1. Bacterial abundances in Simulation 1 (high-diversity c...
Figure S4. (A) The consensus taxonomic profile of kefir samples, as predicted by averaging the resul...
Figure S2. False positives detected using each species classifier with the total number of reads fro...
Figure S6. Dissimilarity plot based on the relative abundances of the 865 level-4 enzyme commission ...
Table S4. Statistical differences in alpha diversity at different sequencing depths. (XLSX 10Â kb
Table S5. Statistical differences in the relative abundances of enzyme commission (EC) level-4 categ...
Figure S8. SUPER-FOCUS level 2 subsystems which were significantly altered at different sequencing d...
Background The use of shotgun metagenomics to analyse low-complexity microbial commu...
Relative abundance of intestinal microbiome (species level classification of OTUs). (XLSX 2182 kb
Figure S6. Taxonomic composition of bacterial mock community samples pre-filtering (a) and post-filt...
Table S5. a Prokaryotic OTUs distribution in samples. b Methanotropic OTUs distribution in samples (...
Comparison of the effect of OTU picking method on the proportion of OTUs cultured. Figure S2 Compari...
Table S1. PERMANOVA analysis used to assess microbial community structure differences. Table S2. Med...
Counts for spectra assigned at the species level by the MEGAN5 LCA. Each row lists spectral counts a...
Table S7. Summary of selected protein families (Pfam) based on rpstblastx algorithm. (PDF 410 kb
Supplementary tables. Supplementary Table S1. Bacterial abundances in Simulation 1 (high-diversity c...
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