Genozip 14 - advances in compression of BAM and CRAM files

Lan, Divon Mordechai; Llamas, Bastien

doi:10.1101/2022.09.12.507582

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2023

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(2 citation statements)

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“…We shall focus our discussion on describing and analysing the Deep method (see Table S5 for source code information). We refer the interested reader to earlier publications 5,7 describing the methods Genozip utilises to compress the actual BAM and FASTQ data.…”

Section: Methodsmentioning

confidence: 99%

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Deep FASTQ and BAM co-compression in Genozip 15

Lan

Hughes

Llamas

2023

Preprint

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We introduce Genozip Deep, a method for losslessly co-compressing FASTQ and BAM files. Benchmarking demonstrates improvements of 75% to 96% versus the already-compressed source files, translating to 2.3X to 6.8X better compression than current state-of-the-art algorithms that compress FASTQ and BAM separately. The Deep method is independent of the underlying FASTQ and BAM compressors, and here we present its implementation in Genozip, an established genomic data compression software.

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Section: Methodsmentioning

confidence: 99%

“…We implemented the Deep method on top of the existing Genozip platform-an established software package for compressing genomic files [5][6][7] . We released the resulting combined system as Genozip version 15.…”

Section: Introductionmentioning

confidence: 99%