plot.miic

[a miic graph object]
The graph object returned by <code><a rd-options="" href="/link/miic?package=miic&version=1.5.3" data-mini-rdoc="miic::miic">miic</a></code>.

A string representing the plotting method. Default to "igraph".
Currently only "igraph" is supported.

method

Additional plotting parameters. See the corresponding plot function
for the complete list.
For igraph, see <code><a rd-options="igraph" href="/link/igraph.plotting?package=miic&version=1.5.3&to=igraph" data-mini-rdoc="igraph::igraph.plotting">igraph.plotting</a></code>.

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This function calls <code>miic.export</code> to build a
plottable object from the result returned by <code>miic</code> and plot it.

We report an information-theoretic method which learns a large
class of causal or non-causal graphical models from purely observational
data, while including the effects of unobserved latent variables, commonly
found in many datasets. Starting from a complete graph, the method
iteratively removes dispensable edges, by uncovering significant information
contributions from indirect paths, and assesses edge-specific confidences
from randomization of available data. The remaining edges are then oriented
based on the signature of causality in observational data. This approach can
be applied on a wide range of datasets and provide new biological insights
on regulatory networks from single cell expression data, genomic alterations
during tumor development and co-evolving residues in protein structures.
For more information you can refer to:
Cabeli et al. PLoS Comp. Bio. 2020 <doi:10.1371/journal.pcbi.1007866>,
Verny et al. PLoS Comp. Bio. 2017 <doi:10.1371/journal.pcbi.1005662>.

Vincent Cabeli

miic

Learning Causal or Non-Causal Graphical Models Using Information
Theory

Honghao Li

Marcel Ribeiro Dantas

Nadir Sella

Louis Verny

Severine Affeldt

Hervé Isambert

plot.miic function

<dl><dt>x</dt>
<dd>[a miic graph object]
The graph object returned by <code>miic</code>.</dd>
<dt>method</dt>
<dd>A string representing the plotting method. Default to "igraph".
Currently only "igraph" is supported.</dd>
<dt>...</dt>
<dd>Additional plotting parameters. See the corresponding plot function
for the complete list.
For igraph, see <code><a href="/link/igraph.plotting?package=miic&version=1.5.3" data-mini-rdoc="miic::igraph.plotting">igraph.plotting</a></code>.</dd></dl>

Arguments

Basic plot function of a miic network inference result — plot.miic

<dl>

<dt>x</dt>
<dd>[a miic graph object]
The graph object returned by <code>miic</code>.</dd>


<dt>method</dt>
<dd>A string representing the plotting method. Default to "igraph".
Currently only "igraph" is supported.</dd>


<dt>...</dt>
<dd>Additional plotting parameters. See the corresponding plot function
for the complete list.
For igraph, see <code><a href='https://rdrr.io/pkg/igraph/man/plot.common.html'>igraph.plotting</a></code>.</dd>

</dl>

plot.miic: Basic plot function of a miic network inference result

Description

Usage

Arguments

Details

See Also