Charlotte Herzeel
Charlotte Herzeel received her PhD in Computer Science from the Free University of Brussels in 2010. She then worked as a post-doctoral researcher at the Intel ExaScience Lab where her research focused on parallel programming, task scheduling and software resilience. In 2013 she joined imec as a researcher at the ExaScience Life Lab where she works on optimizing sequencing software and machine learning applications through parallel programming techniques. Major results include the open-source software packages elPrep and Halvade, which are published in highly ranked journals in the Bioinformatics community. Since its publication, elPrep is being used at multiple hospitals, bioinformatics and pharmaceutical companies, as well as third party sequencing platforms. Her research interests include software optimisation, software engineering, parallel and distributed programming, algorithms, machine learning, and bioinformatics.
Authored articles
Software optimizations make variant calling 8 to 16 times faster
The imec ExaScience Life Lab developed a software tool – elPrep5 – for sequencing pipelines with variant calling. It produces results like established state-of-the-art genome analysis programs (SAMtools, Picard and GATK4®) but it speeds up the runtime by a factor 8 to 16, for both whole-exome and whole-genome data.
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