Download NCBI taxonomy database and parse information that are needed for PhyloProfile, including taxon IDs, their scientific names, systematic ranks, and parent (next higher) rank IDs.
A dataframe contains NCBI taxon IDs, taxon names, taxon ranks and the next higher taxon IDs (parent's IDs) of all taxa in the NCBI taxonomy database.
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?processNcbiTaxonomy ## Not run: preProcessedTaxonomy <- processNcbiTaxonomy() # save to text (tab-delimited) file write.table( preProcessedTaxonomy, file = "preProcessedTaxonomy.txt", col.names = TRUE, row.names = FALSE, quote = FALSE, sep = "\t" ) # save to rdata file save( preProcessedTaxonomy, file = "preProcessedTaxonomy.RData", compress='xz' ) ## End(Not run)
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