get_significant_values: A function to select significant components among matrix of...

In tvatanen/microbiomics: Microbiomics

Description

This function takes a matrix of values (e.g. correlations from pairwise_spearman) and corresponding p-values and/or q-values. Given the threshold for p- and q-values it will return reduced matrices of significant values where each row and column contain at least one significant value (while retaining the original row and column names).

Usage

get_significant_values(values, p_values, q_values = NA,
  pvalue_threshold = 0.01, qvalue_threshold = 0.1)

Arguments

values	matrix of values of interest (e.g. correlations)
p_values	matrix of p-values for the matrix in the first argument
q_values	(optional) matrix of q-values for the matrix in the first argument. If q-values are given, no p-value thresholding is done.
pvalue_threshold	threshold for significance for the p-values (default 0.01)
qvalue_threshold	threshold for significance for the q-value (default 0.1)

Value

a list with following elements

• values: matrix of significant values in the matrix of the first argument

• p: matrix of p-values for the values above

• q: matrix of q-values for the values above (if q-values are given as argument)

Author(s)

Tommi Vatanen <[e-mail]>

tvatanen/microbiomics documentation built on Sept. 27, 2019, 7:29 a.m.