o2m_stripped

NOTE THAT THIS FUNCTION DOES NOT CENTER NOR SCALES THE MATRICES! Any normalization you will have to do yourself. It is best practice to at least center the variables though.
A stripped version of O2PLS

internal

Performs the O2PLS data integration method for two datasets, yielding joint and data-specific parts for each dataset.
The algorithm automatically switches to a memory-efficient approach to fit O2PLS to high dimensional data.
It provides a rigorous and a faster alternative cross-validation method to select the number of components,
as well as functions to report proportions of explained variation and to construct plots of the results.
See the software article by el Bouhaddani et al (2018) <doi:10.1186/s12859-018-2371-3>,
and Trygg and Wold (2003) <doi:10.1002/cem.775>.
It also performs Sparse Group (Penalized) O2PLS, see Gu et al (2020) <doi:10.1186/s12859-021-03958-3> and cross-validation for the degree of sparsity.

Said Bouhaddani

OmicsPLS

Data Integration with Two-Way Orthogonal Partial Least Squares

Said el Bouhaddani

Zander Gu

Jeanine Houwing-Duistermaat

Geurt Jongbloed

Szymon Kielbasa

Hae-Won Uh

o2m_stripped function

<dl><dt>X</dt>
<dd>Numeric matrix. Vectors will be coerced to matrix with <code>as.matrix</code> (if this is possible)</dd>
<dt>Y</dt>
<dd>Numeric matrix. Vectors will be coerced to matrix with <code>as.matrix</code> (if this is possible)</dd>
<dt>n</dt>
<dd>Integer. Number of joint PLS components. Must be positive.</dd>
<dt>nx</dt>
<dd>Integer. Number of orthogonal components in \(X\). Negative values are interpreted as 0</dd>
<dt>ny</dt>
<dd>Integer. Number of orthogonal components in \(Y\). Negative values are interpreted as 0</dd></dl>

Arguments

Perform O2-PLS with two-way orthogonal corrections — o2m_stripped

<dl>

<dt>X</dt>
<dd>Numeric matrix. Vectors will be coerced to matrix with <code>as.matrix</code> (if this is possible)</dd>


<dt>Y</dt>
<dd>Numeric matrix. Vectors will be coerced to matrix with <code>as.matrix</code> (if this is possible)</dd>


<dt>n</dt>
<dd>Integer. Number of joint PLS components. Must be positive.</dd>


<dt>nx</dt>
<dd>Integer. Number of orthogonal components in \(X\). Negative values are interpreted as 0</dd>


<dt>ny</dt>
<dd>Integer. Number of orthogonal components in \(Y\). Negative values are interpreted as 0</dd>

</dl>

o2m_stripped: Perform O2-PLS with two-way orthogonal corrections

Description

Usage

Value

Arguments

Details

See Also