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Published on: March 27, 2017
Sstack: an R package for stacking with applications to scenarios involving sequential addition of samples and
Kevin Matlock1, Raziur Rahman1, Souparno Ghosh2
1Department of Electrical and Computer Engineering.
Summary:
Biological processes are characterized by a variety of different genomic feature sets. However, often times when building models, portions of these features are missing for a subset of the dataset. We provide a modeling framework to effectively integrate this type of heterogeneous data to improve prediction accuracy. To test our methodology, we have stacked data from the Cancer Cell Line Encyclopedia to increase the accuracy of drug sensitivity prediction. The package addresses the dynamic regime of information integration involving sequential addition of features and samples.
Availability And Implementation:
The framework has been implemented as a R package Sstack, which can be downloaded from https://cran.r-project.org/web/packages/Sstack/index.html, where further explanation of the package is available.
Supplementary Information:
Supplementary data are available at Bioinformatics online.
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