get_Components: Estimate components for O2-PLS method
In MMINP: Microbe-Metabolite Interactions-Based Metabolic Profiles Predictor

get_Components

R Documentation

Estimate components for O2-PLS method

get components number using Cross-validate procedure of O2-PLS

get_Components(
  metag,
  metab,
  compmethod = NULL,
  n = 1:10,
  nx = 0:5,
  ny = 0:5,
  seed = 1234,
  nr_folds = 3,
  nr_cores = 1
)

`metag`	Training data of sequence features' relative abundances. Must have the exact same rows (subjects/samples) as `metab`.
`metab`	Training data of metabolite relative abundances. Must have the exact same rows (subjects/samples) as `metag`.
`compmethod`	A character string indicating which Cross-validate procedure of O2PLS is to be used for estimating components, must be one of "NULL", "cvo2m" or "cvo2m.adj". If set to "NULL", depends on the features number.
`n`	Integer. Number of joint PLS components. Must be positive. More details in `crossval_o2m` and `crossval_o2m_adjR2`.
`nx`	Integer. Number of orthogonal components in `metag`. Negative values are interpreted as 0. More details in `crossval_o2m` and `crossval_o2m_adjR2`.
`ny`	Integer. Number of orthogonal components in `metab`. Negative values are interpreted as 0. More details in `crossval_o2m` and `crossval_o2m_adjR2`.
`seed`	a random seed to make the analysis reproducible, default is 1234.
`nr_folds`	Positive integer. Number of folds to consider. Note: `kcv=N` gives leave-one-out CV. Note that CV with less than two folds does not make sense. More details in `crossval_o2m` and `crossval_o2m_adjR2`.
`nr_cores`	Positive integer. Number of cores to use for CV. You might want to use `detectCores()`. Defaults to 1. More details in `crossval_o2m` and `crossval_o2m_adjR2`.