MBR-class: MBR objects

In chagasVinicius/RTNduals: analysis of co-regulatory network motifs and inference of 'dual regulons'.

Description

MBR: an S4 class for co-regulation analysis and inference of 'dual regulons'.

Details

The MBR class is a container for results from the MBR methods. The class slots are used to store information of different transcriptional networks, regulator annotation, infered 'dual regulons' and parameters used in the analysis. All the information is stored in nine slots.

Slots

TNI1

a 'TNI' object created by the RTN package.

TNI2

another 'TNI' object created by the RTN package.

testedElementsTNI1

regulatory elements listed in the TNI1.

testedElementsTNI2

regulatory elements listed in the TNI2.

dualRegulons

all possible 'duals regulons' computed by mbrAssociation

results

a list, results from the MBR methods.

para

a list, parameters used in the MBR methods.

summary

a list, summary for 'para' and 'results'.

status

a character vector specifying the status of the MBR object based on the available methods.

Constructor

There are two constructors to create an MBR object, users can opt for one of the following: (1) mbrPreprocess; (2) tni2mbrPreprocess.

• (1): It is used to create an MBR object without any pre-computed transcriptional network.

• (2): It is used to create an MBR object using available transcriptional networks.

chagasVinicius/RTNduals documentation built on May 13, 2019, 3:10 p.m.