View source: R/dada_phyloseq.R
read_pq | R Documentation |
read_pq(
path = NULL,
taxa_are_rows = FALSE,
sam_names = NULL,
sep_csv = "\t",
...
)
path |
(required) a path to the folder to read the phyloseq object |
taxa_are_rows |
(default to FALSE) see ?phyloseq for details |
sam_names |
The name of the variable (column) in sam_data.csv to rename
samples. Note that if you use |
sep_csv |
(default tabulation) separator for column |
... |
Other arguments passed on to |
One to four csv tables (refseq.csv, otu_table.csv, tax_table.csv, sam_data.csv) and if present a phy_tree in Newick format. At least the otu_table.csv need to be present.
write_pq(data_fungi, path = paste0(tempdir(), "/phyloseq"))
read_pq(path = paste0(tempdir(), "/phyloseq"))
unlink(paste0(tempdir(), "/phyloseq"), recursive = TRUE)
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