Ensemble Boolean Model Biomarker Analysis

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.


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install.packages("emba")

0.1.1 by John Zobolas, a month ago


https://github.com/bblodfon/emba


Report a bug at https://github.com/bblodfon/emba/issues


Browse source code at https://github.com/cran/emba


Authors: John Zobolas [aut, cph, cre]


Documentation:   PDF Manual  


MIT + file LICENSE license


Imports graphics, grDevices, utils, rje, igraph, visNetwork, Ckmeans.1d.dp, magrittr, usefun

Suggests testthat


See at CRAN