Description Usage Arguments Value Examples
View source: R/summarize_taxa.R
Takes a feature table (ex OTUs/SVs) and a parsed taxonomy table to generate a named list of feature tables with abundances summed to each taxonomic level.
1 | summarize_taxa(features, taxonomy)
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features |
a table of abundances where rows are features and columns are samples |
taxonomy |
a table of taxonomies that has been parsed (ex using parse_taxonomy). Should contain the following columns: Kingdom,Phylum,Class,Order,Family,Genus,Species. |
a named list of abundances aggregated at each level.
1 | ## Not run: taxasums<-summarize_taxa(svtable, taxonomy); taxasums$Species
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