maigesActNet-class:
maigesActNet class, store results of functional classification of gene
networks
Description
This class defines a structure to store the results of functional
classification of gene networks that was proposed and implemented
in this package. Objects of this type are generated by calling the
function activeNet.
Slots
scores:- numerical matrix storing the results of a
statistic to test the functional activation of the networks
studied. The rows and columns of the matrix represents the
biological sample types and the networks, respectively.
Pvalues:- numerical matrix storing the p-values of the
statistical test. As in the previous slot, matrix rows and columns
represents the biological sample types and the networks, respectively.
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 = 'maigesActNet'): image method for
maigesActNet class. Display colour representation of
the statistics or p-values of gene networks.- plot
signature(x = 'maigesActNet'): plot method for
maigesActNet class. Do the same as image.- print
signature(x = 'maigesActNet'): print method for
maigesActNet class.- show
signature(x = 'maigesActNet'): show method for
maigesActNet class.- summary
signature(x = 'maigesActNet'): summary method for
maigesActNet class.
Details
Objects of this class are produced by calling the function
activeNet over an object of class maiges
to search for gene networks that present evidence of activation in different
biological types. This is done according to the model proposed in the
PhD thesis of the author of this package.