Converts the uBiome file format to taxmap. NOTE: This is experimental and might not work if uBiome changes their format. Contact the maintainers if you encounter problems/
parse_ubiome(file = NULL, table = NULL)taxmap
(character of length 1) The file path to the input file.
Either "file", or "table" must be used, but only one.
(character of length 1) An already parsed data.frame or
tibble. Either "file", or "table" must be used, but only one.
The input file has a format like:
tax_name,tax_rank,count,count_norm,taxon,parent
root,root,29393,1011911,1,
Bacteria,superkingdom,29047,1000000,2,131567
Campylobacter,genus,23,791,194,72294
Flavobacterium,genus,264,9088,237,49546
Other parsers:
extract_tax_data(),
lookup_tax_data(),
parse_dada2(),
parse_edge_list(),
parse_greengenes(),
parse_mothur_tax_summary(),
parse_mothur_taxonomy(),
parse_newick(),
parse_phylo(),
parse_phyloseq(),
parse_qiime_biom(),
parse_rdp(),
parse_silva_fasta(),
parse_tax_data(),
parse_unite_general()