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. 2018 Mar 1;34(5):871-872.
doi: 10.1093/bioinformatics/btx674.

SeqBox: RNAseq/ChIPseq reproducible analysis on a consumer game computer

Marco Beccuti  1 , Francesca Cordero  1 , Maddalena Arigoni  2 , Riccardo Panero  2 , Elvio G Amparore  1 , Susanna Donatelli  1 , Raffaele A Calogero  2
Affiliations

SeqBox: RNAseq/ChIPseq reproducible analysis on a consumer game computer

Marco Beccuti et al. Bioinformatics. .

Abstract

Summary: Short reads sequencing technology has been used for more than a decade now. However, the analysis of RNAseq and ChIPseq data is still computational demanding and the simple access to raw data does not guarantee results reproducibility between laboratories. To address these two aspects, we developed SeqBox, a cheap, efficient and reproducible RNAseq/ChIPseq hardware/software solution based on NUC6I7KYK mini-PC (an Intel consumer game computer with a fast processor and a high performance SSD disk), and Docker container platform. In SeqBox the analysis of RNAseq and ChIPseq data is supported by a friendly GUI. This allows access to fast and reproducible analysis also to scientists with/without scripting experience.

Availability and implementation: Docker container images, docker4seq package and the GUI are available at http://www.bioinformatica.unito.it/reproducibile.bioinformatics.html.

Contact: beccuti@di.unito.it.

Supplementary information: Supplementary data are available at Bioinformatics online.

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Figures

Fig. 1
Fig. 1
(A) SeqBox framework: depicting the structure of SeqBox and its functionalities from a user point of view. The analysis flows from left to right. (B) Characteristics of the hardware used to evaluate the SeqBox performances
See this image and copyright information in PMC

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