outstate_graph: Generate state transition graph

In BTR: Training and Analysing Asynchronous Boolean Models

Description

This function generates a state transition graph using a Boolean model and its state space. Each node represent a state. All nodes in this graph is linked by an edge only if the 2 states have different value in only 1 gene. The output is readable by Cytoscape and Gephi.

Usage

outstate_graph(mstate, bmodel, directed = F, record.both = F,
  filepath = getwd())

Arguments

mstate	data frame. It should be a state(row) x gene(column) df.
bmodel	S4 BoolModel object.
directed	logical. Indicates whether to make directed edges or not. Default to FALSE.
record.both	logical. Indicates whether to also record nodes that have no edges. Default to FALSE.
filepath	character vector. Specify path (AND NOT file name). Default to current working directory, i.e. getwd(). Set to NULL to disable file output.

BTR documentation built on May 2, 2019, 12:21 p.m.