BamSnap: a lightweight viewer for sequencing reads in BAM files.

ABSTRACT:

Summary

Despite the improvement in variant detection algorithms, visual inspection of the read-level data remains an essential step for accurate identification of variants in genome analysis. We developed BamSnap, an efficient BAM file viewer utilizing a graphics library and BAM indexing. In contrast to existing viewers, BamSnap can generate high-quality snapshots rapidly, with customized tracks and layout. As an example, we produced read-level images at 1000 genomic loci for >2500 whole-genomes.

Availability

BamSnap is freely available at https://github.com/parklab/bamsnap.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Kwon M 

PROVIDER: S-EPMC8055225 | biostudies-literature |

REPOSITORIES: biostudies-literature