phyloseq_transform_vst_blind: Variance stabilizing transformation (VST) of OTU abundance...

In vmikk/metagMisc: Miscellaneous functions for metagenomic analysis

Variance stabilizing transformation (VST) of OTU abundance table.

Description

Variance stabilizing transformation (VST) of OTU abundance table.

Usage

phyloseq_transform_vst_blind(physeq, dropneg = F, dropmissing = T, ...)

Arguments

physeq	A phyloseq-class object
dropneg	Logical, replace negative transformed values with 0
dropmissing	Logical, remove missing data
...	Not yet implemented

Details

For downstream analysis it could be better to use sample covariate information (blind = FALSE in varianceStabilizingTransformation).

Value

Phyloseq object with transformed counts in OTU table.

See Also

phyloseq_transform_rlog_blind, phyloseq_transform_css, varianceStabilizingTransformation, rlog

vmikk/metagMisc documentation built on Feb. 14, 2024, 2:29 a.m.