BamHash: a checksum program for verifying the integrity of sequence data.
basic_science · Level V
Where this comes from
- Record sourced from PubMed, PMID 26363028.
- Also identified by DOI 10.1093/bioinformatics/btv539.
- 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
Large resequencing projects require a significant amount of storage for raw sequences, as well as alignment files. Because the raw sequences are redundant once the alignment has been generated, it is possible to keep only the alignment files. We present BamHash, a checksum based method to ensure that the read pairs in FASTQ files match exactly the read pairs stored in BAM files, regardless of the ordering of reads. BamHash can be used to verify the integrity of the files stored and discover any discrepancies. Thus, BamHash can be used to determine if it is safe to delete the FASTQ files storing raw sequencing read after alignment, without the loss of data. The software is implemented in C++, GPL licensed and available at https://github.com/DecodeGenetics/BamHash pmelsted@hi.is.
Medical subject headings
- Sequence Analysis
- Software
- Statistics as Topic