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Adenine: A HPC-Oriented Tool for Biological Data Exploration

2019; Springer Science+Business Media; Linguagem: Inglês

10.1007/978-3-030-14160-8_6

1611-3349

Samuele Fiorini, Federico Tomasi, Margherita Squillario, Annalisa Barla,

Algorithms and Data Compression

adenine is a machine learning framework designed for biological data exploration and visualization. Its goal is to help bioinformaticians achieving a first and quick overview of the main structures underlying their data. This software tool encompasses state-of-the-art techniques for missing values imputing, data preprocessing, dimensionality reduction and clustering. adenine has a scalable architecture which seamlessly work on single workstations as well as on high-performance computing facilities. adenine is capable of generating publication-ready plots along with quantitative descriptions of the results. In this paper we provide an example of exploratory analysis on a publicly available gene expression data set of colorectal cancer samples. The software and its documentation are available at https://github.com/slipguru/adenine under FreeBSD license.