create_tidyamplicons: Initiate tidyamplicons object

In SWittouck/tidyamplicons: Functions to Manipulate and Visualize Amplicon Abundance Data

Initiate tidyamplicons object

Description

tidyamplicons returns a tidyamplicons object given a numeric matrix.

Usage

create_tidyamplicons(abundance_matrix, taxa_are_columns = TRUE)

Arguments

abundance_matrix	Numerical matrix containing the abundance data.
taxa_are_columns	A logical scalar. Are the taxa defined in columns?

Details

This function initiates a tidyamplicons object based on a numeric matrix. It will automatically create a dummy taxa and sample table which will need to be updated using the functions add_taxon_tibble and add_sample_tibble.

Examples

# Initiate abundance matrix
x <- matrix(
 c(1500, 1300, 280, 356),
 ncol = 2
)
rownames(x) <- c("taxon1", "taxon2")
colnames(x) <- c("sample1", "sample2")

# Convert to tidyamplicons object
data <- create_tidyamplicons(x,
                     taxa_are_columns = FALSE)


## Not run: 
tidyamplicons("a")

## End(Not run)

SWittouck/tidyamplicons documentation built on Aug. 15, 2023, 3:14 a.m.