get_models_based_on_mcc_class_id

an integer specifying the class id.

class.id

a numeric vector of cluster ids assigned to each
model. It is the result of using <code><a rd-options="Ckmeans.1d.dp" href="/link/Ckmeans.1d.dp?package=emba&version=0.1.1&to=Ckmeans.1d.dp" data-mini-rdoc="Ckmeans.1d.dp::Ckmeans.1d.dp">Ckmeans.1d.dp</a></code>
with input the sorted vector of the models' MCC values with no NaNs included.

models.cluster.ids

a numeric sorted vector of Matthews Correlation Coefficient (MCC)
scores, one for each model (no NaNs included).
The names attribute holds the models' names.

models.mcc

This helper function finds all the models that belong to a specific MCC
cluster, i.e. their MCC values belong to the same cluster id.

Analysis and visualization of an ensemble of boolean models for
biomarker discovery in cancer cell networks. The package allows to easily
import the data results of a software pipeline that predicts synergistic drug
combinations in cancer cell lines, developed by the DrugLogics research group
in NTNU. It has generic functions that can be used to split a boolean model
dataset to model groups with regards to the models predictive performance (number of true
positive predictions or Matthews correlation coefficient score) or synergy prediction based on a given set
of observed synergies and find the average activity difference per network
node between all group pairs. Thus, given user-specific thresholds,
important nodes (biomarkers) can be accessed in the sense that they make the
models predict specific synergies (synergy biomarkers) or have better
performance in general (performance biomarkers). Lastly, if the
boolean models have a specific equation form and differ only in their link operator,
link operator biomarkers can also be assessed.

John Zobolas

emba

Ensemble Boolean Model Biomarker Analysis

get_models_based_on_mcc_class_id function

a numeric vector of cluster ids assigned to each
model. It is the result of using <code><a rd-options='Ckmeans.1d.dp' href='Ckmeans.1d.dp'>Ckmeans.1d.dp</a></code>
with input the sorted vector of the models' MCC values with no NaNs included.

get_models_based_on_mcc_class_id: Get models based on the MCC class id

Description

Usage

Arguments

Value