normalize: Normalize the phyloseq object with different methods
Description
Normalize the phyloseq object with different methods
Usage
normalize(physeq, group, method = "relative", table = FALSE)
Value
phyloseq object with normalized data
Arguments
- physeq
A phyloseq object containing merged information of abundance,
taxonomic assignment, sample data including the measured variables and categorical information
of the samples, and / or phylogenetic tree if available.
- group
group (DESeq2). A character string specifying the name of a categorical variable containing grouping information.
- method
A list of character strings specifying method to be used to normalize the phyloseq object
Available methods are: "relative","TMM","vst","log2".
- table
return a data.frame or not
Examples
Run this code{
data("Physeq")
phy<-normalize(physeq)
}
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