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Update the summary table and comparison characteristics

Source: R/list_phyloseq.R
update_list_phyloseq.Rd

Recomputes the summary_table and comparison slots. Useful after modifying the phyloseq objects in place or to change the comparison parameters.

Usage

update_list_phyloseq(
  x,
  same_primer_seq_tech = NULL,
  same_bioinfo_pipeline = NULL,
  compute_dist = TRUE,
  verbose = TRUE
)

Arguments

x

(required) A list_phyloseq object.

same_primer_seq_tech

(logical, default NULL) Whether the same primer and sequencing technology was used. If NULL, preserves the original value.

same_bioinfo_pipeline

(logical, default NULL) Whether the same bioinformatics pipeline was used. If NULL, preserves the original value.

compute_dist

(logical, default TRUE) Whether to compute pairwise k-mer distances between refseq slots.

Value

An updated list_phyloseq object

Details

lifecycle-experimental

Examples

lpq <- list_phyloseq(list(run1 = data_fungi, run2 = data_fungi_mini),
  verbose = FALSE
)
lpq2 <- update_list_phyloseq(lpq, compute_dist = FALSE, verbose = FALSE)