How can I visualize the output of BAM metrics files generated by samtools stats?

How can I visualize the output of BAM metrics files generated by samtools stats?

1

I have a few dozen BAM files and I used samtools stats to generate .txt files containing the outputted BAM metrics for each of my BAMs. I would now like to visualize this output to better understand it, but I’m not sure how to do this.

The samtools stats page in htslib (www.htslib.org/doc/samtools-stats.html) says I can visualize the output with plot-bamstats, but I’m finding no information on how to use plot-bamstats. I tried the syntax plot-bamstats my_BAM.txt, but it said I was missing a -p flag which I do not know how to use.

How can I visualize the output with plot-bamstats or some other method?


visualization


bam


samtools


samtools-stats

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