Bam-readcount - rapid generation of basepair-resolution sequence metrics.

Authors

Ajay Khanna, David E Larson, Sridhar Nonavinkere Srivatsan, Matthew Mosior, Travis E Abbott, Susanna Kiwala, Timothy J Ley, Eric J Duncavage, Matthew J Walter, Jason R Walker, Obi L Griffith, Malachi Griffith, Christopher A Miller

Published in

Journal of open source software. Volume 7. Issue 69. Epub Jan 29, 2022.

Abstract

Bam-readcount is a utility for generating low-level information about sequencing data at specific nucleotide positions. Originally designed to help filter genomic mutation calls, the metrics it outputs are useful as input for variant detection tools and for resolving ambiguity between variant callers (Koboldt et al., 2013a; Kothen-Hill et al., 2018). In addition, it has found broad applicability in diverse fields including tumor evolution, single-cell genomics, climate change ecology, and tracking community spread of SARS-CoV-2 (Miller et al., 2018; Müller et al., 2018; Paiva et al., 2020; Sun et al., 2020).

PMID:
42453900
Bibliographic data and abstract were imported from PubMed on 15 Jul 2026.

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