A subset of the GlobalPatterns dataset from the phyloseq
package, filtered to five habitat types (Soil, Ocean, Freshwater,
Freshwater creek, Sediment estuary) and reshaped to long format.
Relative abundance (RA) is pre-calculated per ASV per sample.
Format
A data frame with columns:
- SampleID
Sample identifier
- OTU
ASV/OTU identifier
- Counts
Raw read counts
- Depth
Total sequencing depth per sample
- RA
Relative abundance (Counts / Depth)
- Habitat
Broad habitat category (Terrestrial, Oceanic, Freshwater, Brackish)
- Description
Sample description)
- SampleType
Original sample type label
- Kingdom
Taxonomic kingdom
- Phylum
Taxonomic phylum
- Class
Taxonomic class
- Order
Taxonomic order
- Family
Taxonomic family
- Genus
Taxonomic genus
@source Caporaso, J.G., et al. (2011). Global patterns of 16S rRNA
diversity at a depth of millions of sequences per sample.
PNAS, 108, 4516–4522.
Available via phyloseq::GlobalPatterns.