corr_coef {structToolbox}R Documentation

Correlation Coefficient

Description

Calculates correlation between features and continuous variables.

Usage

corr_coef(alpha = 0.05, mtc = "fdr", factor_names, method = "spearman", ...)

Arguments

alpha

p-value threshold for determining significance. Default alpha = 0.05.

mtc

multiple test correction method to apply. Can be: holm, hochberg, hommel, bonferroni, BH, BY, fdr or none

factor_names

Sample_meta column names to correlate features with

method

'Calculate "kendall", "pearson" or "spearman" correlation coefficient. Default method = "spearman".'

...

additional slots and values passed to struct_class

Value

struct object

Examples

D = MTBLS79_DatasetExperiment(filtered=TRUE)

# subset for this example
D = D[,1:10]

# convert to numeric for this example
D$sample_meta$sample_order=as.numeric(D$sample_meta$sample_order)
D$sample_meta$sample_rep=as.numeric(D$sample_meta$sample_rep)

M = corr_coef(factor_names=c('sample_order','sample_rep'))
M = model_apply(M,D)


[Package structToolbox version 1.0.1 Index]