HTSSIP (version 1.4.1)

physeq_list_betaDiv: calculating beta diversity for a list of phyloseq objects

Description

For each phyloseq object in a list, calculates beta-diversity between all samples using the phyloseq::distance function.

Usage

physeq_list_betaDiv(physeq_l, method = "unifrac", weighted = TRUE,
  fast = TRUE, normalized = TRUE, parallel = FALSE)

Arguments

physeq_l

A list of phyloseq objects

method

See phyloseq::distance

weighted

Weighted Unifrac (if calculating Unifrac)

fast

Fast calculation method

normalized

Normalized abundances

parallel

Calculate in parallel

Value

List of dist objects

Details

Note: for calculating Unifrac values, phyloseq will select a root at random if the input phylogeny is not rooted.

Examples

# NOT RUN {
data(physeq_S2D2_l)
# }
# NOT RUN {
physeq_S2D2_l_d = physeq_list_betaDiv(physeq_S2D2_l)
# }
# NOT RUN {
# }