norm_tab-matrix: Normalize the quantitative matrix.

In Guan06/mina: Microbial community dIversity and Network Analysis

Description

Normalize the quantitative matrix.

Usage

## S4 method for signature 'matrix,character'
norm_tab(x, method, depth = 1000, replace = TRUE, multi = 1, ...)

Arguments

x	A quantitative matrix with samples in columns and compositions in rows.
method	The method used for normalization.
depth	The depth for rarefying, 1000 by default.
replace	Whether to sample with replacement (TRUE by default) or without replacement (FALSE) when using method 'raref'.
multi	Rarefy the table for multiple times, 1 by default, indicate the times of rarefaction want to be repeated, only validate for rarefaction.
...	Additional parameters.

Value

The normalized quantitative matrix.

x_norm Normalized matrix of the quantitative table.

Examples

data(maize_asv2)
maize_asv_norm <- norm_tab(maize_asv2, method = "total")
maize_asv_norm <- norm_tab(maize_asv2, method = "raref", depth = 1000,
replace = TRUE, multi = 3)

Guan06/mina documentation built on Feb. 21, 2022, 11:56 a.m.