View source: R/dada_phyloseq.R
rarefy_sample_count_by_modality | R Documentation |
This function randomly draw the same number of samples for each modality of factor.
It is usefull to dissentangle the effect of different number of samples per modality
on diversity. Internally used in accu_plot_balanced_modality()
.
rarefy_sample_count_by_modality(physeq, fact, rngseed = FALSE, verbose = TRUE)
physeq |
(required): a |
fact |
(required): The variable to rarefy. Must be present in
the |
rngseed |
(Optional). A single integer value passed to set.seed, which is used to fix a seed for reproducibly random number generation (in this case, reproducibly random subsampling). If set to FALSE, then no iddling with the RNG seed is performed, and it is up to the user to appropriately call |
verbose |
(logical). If TRUE, print additional informations. |
A new phyloseq-class
object.
Adrien Taudière
accu_plot_balanced_modality()
table(data_fungi_mini@sam_data$Height)
data_fungi_mini2 <- rarefy_sample_count_by_modality(data_fungi_mini, "Height")
table(data_fungi_mini2@sam_data$Height)
if (requireNamespace("patchwork")) {
ggvenn_pq(data_fungi_mini, "Height") + ggvenn_pq(data_fungi_mini2, "Height")
}
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