Alignoth: portable and interactive visualization of read alignments.
Where this comes from
- Record sourced from PubMed, PMID 41392197.
- Also identified by DOI 10.1093/bioinformatics/btaf663 and PMC identifier 12777968.
- Licence recorded as CC BY.
- The licence permits redistribution, so the abstract is shown in full and the full text is available from the publisher.
Abstract
We present Alignoth, a lightweight command line application that generates self-contained portable HTML reports of DNA sequencing read alignment pileups and additionally supports export to static formats such as PNG, SVG, and PDF as well as a JSON based embeddable representation. The HTML reports feature read name search and mapping-quality-based read highlighting, and require only minimal storage, making them practical to share, inspect, or integrate into broader reporting systems. They can be created in headless (i.e. terminal only) environments while being interactively inspected afterwards. Alignoth is freely available under the MIT license at https://github.com/alignoth/alignoth (doi: https://doi.org/10.5281/zenodo.15837719). It is implemented in Rust and can be installed via Cargo or Conda.
Medical subject headings
- Software
- Sequence Alignment
- Sequence Analysis, DNA