LADE Meeting

Virginia Gazziero

Title: Automatization pipeline for FAIRification and processing of data from a NovaSeq6000 sequencing machine


The advent of Illumina technologies has revolutionized the biology field, and nowadays they stand out as the gold standard for both DNA and RNA sequencing. Since these methodologies generate a huge amount of data, appropriate data-flow management procedures must be integrated within these systems. Therefore, we created and implemented a multi-layered automatization architecture that aligns to the FAIR principles (Findability, Accessibility, Interoperability, and Reusability) for a Illumina-NovaSeq6000 sequencing machine and its processes. In particular, the defined system focuses on the demultiplexing and bcl to fastq format conversion steps. The pipeline described in the talk is based on the usage of Jenkins, an open-source automation server, which represented an extremely useful resource for the project. In addition, the described architecture is also available for ongoing and future developments and implementations for the ORFEO cluster.

Nov 22, 2023 11:30 AM — 12:30 PM
LADE Meeting
Sala Riunioni RIT, edificio AM, Area Science Park
Località Padriciano 99,, Trieste, 34149
Area Science Park - RIT
Area Science Park - RIT
Research Institute

The Institute of Research and Innovation Technology (RIT) at Area Science Park carries out cutting-edge research and provides services and consulting to public and private-sector users through its three laboratories equipped with state-of-the-art technology.