Crumble: reference free lossy compression of sequence quality values.
Where this comes from
- Record sourced from PubMed, PMID 29992288.
- Also identified by DOI 10.1093/bioinformatics/bty608 and PMC identifier 6330002.
- No licence information is recorded for this record.
- Because redistribution is not established, this page shows the abstract only. Follow the links below for the full text.
Abstract
The bulk of space taken up by NGS sequencing CRAM files consists of per-base quality values. Most of these are unnecessary for variant calling, offering an opportunity for space saving. On the Syndip test set, a 17 fold reduction in the quality storage portion of a CRAM file can be achieved while maintaining variant calling accuracy. The size reduction of an entire CRAM file varied from 2.2 to 7.4 fold, depending on the non-quality content of the original file (see Supplementary Material S6 for details). Crumble is OpenSource and can be obtained from https://github.com/jkbonfield/crumble. Supplementary data are available at Bioinformatics online.
Medical subject headings
- Data Compression
- High-Throughput Nucleotide Sequencing