rename_samples: Rename the samples of a phyloseq slot

In MiscMetabar: Miscellaneous Functions for Metabarcoding Analysis

Rename the samples of a phyloseq slot

Description

Useful for targets bioinformatic pipeline.

Usage

rename_samples(phyloseq_component, names_of_samples, taxa_are_rows = FALSE)

Arguments

phyloseq_component	(required) one of otu_table or sam_data slot of a phyloseq-class object
names_of_samples	(required) A vector of samples names
taxa_are_rows	(default to FALSE) see ?phyloseq for details

Value

The otu_table or the sam_data slot with new samples names

Author(s)

Adrien Taudière

Examples

otutab <- rename_samples(
  data_fungi@otu_table,
  paste0("data_f", sample_names(data_fungi))
)
otutab2 <- rename_samples(
  clean_pq(data_fungi,
    force_taxa_as_rows = TRUE
  )@otu_table,
  paste0("data_f", sample_names(data_fungi))
)
samda <- rename_samples(
  data_fungi@sam_data,
  paste0("data_f", sample_names(data_fungi))
)

MiscMetabar documentation built on Oct. 8, 2024, 1:07 a.m.