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A comparison of three programming languages for a full-fledged next-generation sequencing tool
2019
BMC Bioinformatics
elPrep is an established multi-threaded framework for preparing SAM and BAM files in sequencing pipelines. To achieve good performance, its software architecture makes only a single pass through a SAM/BAM file for multiple preparation steps, and keeps sequencing data as much as possible in main memory. Similar to other SAM/BAM tools, management of heap memory is a complex task in elPrep, and it became a serious productivity bottleneck in its original implementation language during recent
doi:10.1186/s12859-019-2903-5
fatcat:wojcekiaz5debcuo36mcczsb64