Description Usage Arguments Details Value Author(s) Examples

View source: R/assessQuality.R

`assessQuality`

allows to assess the quality of cleaning procedures in the context
of correlations when the true underlying correlation structure is known.

1 2 3 4 5 6 | ```
assessQuality(
est,
true,
index = "all",
methods = c("all", "fnorm", "wrong.sign")
)
``` |

`est` |
A matrix of estimated gene expression values. |

`true` |
A matrix of true correlations. |

`index` |
A vector of indices of genes to be included in
the assessment; if |

`methods` |
The method used for quality assessment;
if |

The squared Frobenius norm used for `assessQuality`

has the following structure

*F=\frac{\|E-T\|^2}{s}*

Here, the parameter *E* and the parameter *T* denote the lower triangles of the
estimated and true Fisher transformed correlation matrices, respectively.
The parameter *s* denotes the number of elements in *E* and *T*.

`assessQuality`

returns a vector of the requested quality assessments.

Saskia Freytag

1 2 3 4 | ```
Y<-simulateGEdata(500, 500, 10, 2, 5, g=NULL,
Sigma.eps=0.1, 250, 100, intercept=FALSE, check.input=FALSE)
assessQuality(Y$Y, Y$Sigma, index=1:100, methods="wrong.sign")
assessQuality(Y$Y, Y$Sigma, index=1:100, method="fnorm")
``` |

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