GABAC: an arithmetic coding solution for genomic data.

ABSTRACT:

Motivation

In an effort to provide a response to the ever-expanding generation of genomic data, the International Organization for Standardization (ISO) is designing a new solution for the representation, compression and management of genomic sequencing data: the Moving Picture Experts Group (MPEG)-G standard. This paper discusses the first implementation of an MPEG-G compliant entropy codec: GABAC. GABAC combines proven coding technologies, such as context-adaptive binary arithmetic coding, binarization schemes and transformations, into a straightforward solution for the compression of sequencing data.

Results

We demonstrate that GABAC outperforms well-established (entropy) codecs in a significant set of cases and thus can serve as an extension for existing genomic compress

SUBMITTER: Voges J 

PROVIDER: S-EPMC7141842 | biostudies-literature | 2020 Apr

REPOSITORIES: biostudies-literature