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.

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

BECCUTI, Marco;CORDERO, Francesca;ARIGONI, MADDALENA;PANERO, RICCARDO;AMPARORE, ELVIO GILBERTO;DONATELLI, Susanna;CALOGERO, Raffaele Adolfo
Last
2017-01-01

Abstract

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.
2017
1
2
Beccuti, Marco; Cordero, Francesca; Arigoni, Maddalena; Panero, Riccardo; Amparore, Elvio G; Donatelli, Susanna; Calogero, Raffaele A.
File in questo prodotto:
File Dimensione Formato  
beccuti.et.al.2017.pdf

Accesso aperto

Tipo di file: PDF EDITORIALE
Dimensione 284.69 kB
Formato Adobe PDF
284.69 kB Adobe PDF Visualizza/Apri
JBioInf18.pdf

Accesso riservato

Tipo di file: PDF EDITORIALE
Dimensione 5.66 MB
Formato Adobe PDF
5.66 MB Adobe PDF   Visualizza/Apri   Richiedi una copia

I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.

Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/2318/1650770
Citazioni
  • ???jsp.display-item.citation.pmc??? 14
  • Scopus 19
  • ???jsp.display-item.citation.isi??? 19
social impact