Browsing by Author "Costanza, Pascal"
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Publication A comparison of three programming languages for a full-fledged next-generation sequencing tool
Journal article2019, BMC Bioinformatics, (20) 1, p.301-310Publication A high level library for multi-dimensional arrays programming in computational science
Journal article2018, Concurrency and Computation. Practice and Experience, (30) 7, p.e4376Publication Comparing ease of programming in C++, Go, and Java for implementing a next-generation sequencing tool
Journal article2019, Evolutionary Bioinformatics, 15, p.1-5Publication elPrep - high-performance preparation of SAM files for variant calling
Oral presentation2017, Benelux Bioinformatics Conference 2017Publication elPrep 4: A multithreaded framework for sequence analysis
Journal article2019-02, PLoS ONE, (14) 2, p.1-16Publication elPrep: High-performance preparation of sequence alignment/map files for variant calling
Journal article2015, PLoS ONE, (10) 7, p.e0132868Publication Generic accelerated sequence alignment in SeqAn using vectorization and multi-threading
Journal article2018, Bioinformatics, (34) 20, p.3437-3445Publication Halvade somatic: Somatic variant calling with Apache Spark
Journal article2022, GIGASCIENCE, 11, p.giab094Publication Halvade-RNA: Parallel variant calling from transcriptomic data using MapReduce
Journal article2017-03, PLoS ONE, (12) 3, p.1-11Publication Halvade: scalable sequence analysis with MapReduce
Journal article2015, Bioinformatics, (31) 15, p.2482-2488Publication High-performance preparation of SAM/BAM files for variant calling
Oral presentation2014, Genome Informatics 2014Publication Multithreaded variant calling in elPrep 5
Journal article2021, PLOS ONE, (16) 2, p.e0244471Publication Performance analysis of a parallel, multi-node pipeline for DNA sequencing
Proceedings paper2016, Parallel Processing and Applied Mathematics 11th International Conference - PPAM 2015, 6/09/2015, p.233-243Publication Resolving load balancing issues in BWA on NUMA multicore architectures
Proceedings paper2014, Workshop on Parallel Computational Biology (PBC 2013), joint with 10th Int. Conf. Parallel Processing and Mathematics, 8/09/2013, p.227-236