verify_pq: Verify the validity of a phyloseq object

View source: R/dada_phyloseq.R

verify_pqR Documentation

Verify the validity of a phyloseq object

Description

lifecycle-maturing

Mostly for internal use in MiscMetabar functions.

Usage

verify_pq(
  physeq,
  verbose = FALSE,
  min_nb_seq_sample = 500,
  min_nb_seq_taxa = 1
)

Arguments

physeq

(required): a phyloseq-class object obtained using the phyloseq package.

verbose

(logical, default FALSE) If TRUE, prompt some warnings.

min_nb_seq_sample

(numeric) Only used if verbose = TRUE. Minimum number of sequences per samples to not show warning.

min_nb_seq_taxa

(numeric) Only used if verbose = TRUE. Minimum number of sequences per taxa to not show warning.

Value

Nothing if the phyloseq object is valid. An error in the other case. Warnings if verbose = TRUE


adrientaudiere/MiscMetabar documentation built on Oct. 13, 2024, 9:42 p.m.