maigesRelNetM-class {maigesPack} | R Documentation

## maigesRelNetM class, store results of relevance network analysis (comparing two sample types)

### Description

This class defines a structure to store the results of relevance network analysis, using a method that compare the correlation values between pairs of genes in two different sample types by a z-transformation. Objects of this type are generated calling the function `relNetworkM`.

### Details

Objects of this class are produced by calling the functions `relNetworkM` over an object of class `maiges` to search for pairs of genes with altered correlation values between two sample types tested.

### Slots

`W`:

  numeric matrix giving the W values of the genes tested. This information is useful for doing plots representing the correlation coefficient values.

`Corr1`:

  numerical square matrix that store the correlation coefficient values between all pair of genes tested for the first sample type.

`Corr2`:

  numerical matrix similar to the previous one, storing the correlation values for the second sample type.

`DifP`:

  numerical matrix that store the p-value for the comparison between the correlation values of both sample types tested.

`types`:

  character vector giving the names of sample types tested.

`Slabel`:

  string with the sample label used to define the two sample types tested.

`Date`:

  character string giving the date and time that the object was generated.

`V.info`:

  list containg three characters. The first one is a string containing the R version used when the object was created. The second is a char vector with base packages and the last one is another char vector with additional packages and version numbers.

### Methods

image

  `signature(x = 'maigesRelNetM')`: image method for `maigesRelNetM` class. Display colour representation of the correlation and p-values matrices.

plot

  `signature(x = 'maigesRelNetM')`: plot method for `maigesRelNetM` class. Display circular graphs representing the relevance networks.

print

  `signature(x = 'maigesRelNetM')`: print method for `maigesRelNetM` class.

show

  `signature(x = 'maigesRelNetM')`: show method for `maigesRelNetM` class.

summary

  `signature(x = 'maigesRelNetM')`: summary method for `maigesRelNetM` class.

### Author(s)

Gustavo H. Esteves <gesteves@vision.ime.usp.br>

### See Also

`relNetworkM`.

[Package maigesPack version 1.56.0 Index]