X_decomp {randRotation} | R Documentation

## Decomposition of the design matrix for random rotation generation

### Description

Full QR decomposition of the design matrix `X`. No argument checks are performed, see `Details`.

### Usage

    X_decomp(X = NULL, coef.d = seq_len(ncol(X) - 1))

### Arguments

`X` | Design matrix as generated by `model.matrix`.
`coef.d` | Non-`H0` coefficients.

### Details

The design matrix `X` is QR decomposed into `X = Xq Xr`. By performing a full QR decomposition, `Xq` is automatically extended to a full basis. `Xq` is further split into `Xd` and `Xhe`, where `Xd` corresponds to columns `coef.d` (non-`H0` or non-Null-Hypothesis columns) and `Xhe` correspond to all other columns (`H0` and error columns), see `initRandrot`. No argument checks are performed for reasons of performance as this function is called frequently by `initRandrot` when weights are used. See (Hettegger et al. 2021) and (Langsrud 2005) for further details.

### Value

A `list` object containing matrices `Xd`, `Xhe` and rank of the qr decomposition.

### Author(s)

Peter Hettegger

### References

Hettegger P, Vierlinger K, Weinhaeusel A (2021). “Random rotation for identifying differentially expressed genes with linear models following batch effect correction.” Bioinformatics. ISSN 1367-4803, doi: 10.1093/bioinformatics/btab063, https://doi.org/10.1093/bioinformatics/btab063.
Langsrud O (2005). “Rotation tests.” Statistics and Computing, 15(1), 53–60. ISSN 09603174, doi: 10.1007/s11222-005-4789-5, https://doi.org/10.1007/s11222-005-4789-5.

### Examples

    design <- cbind(1, rep(0:1, 5))
    X_decomp(design)

[Package randRotation version 1.2.2 Index]