Dataset Information

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 and implementation

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 | 2021 Apr

REPOSITORIES: biostudies-literature

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Publications

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

Kwon Minseok M Lee Soohyun S Berselli Michele M Chu Chong C Park Peter J PJ

Bioinformatics (Oxford, England) 20210401 2

<h4>Summary</h4>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 ...[more]

PMID: 33416869

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Dataset Information

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

Summary

Availability and implementation

Supplementary information

Publications

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

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