  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 .
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. Here we report on the release of version 1.0 of this
tool, which adds CRAM support, among other improvements. It is released under a
permissive MIT license and available at
https://github.com/genome/bam-readcount.
