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IGV base counts do not add up to total count

When visualizing bam in IGV, total count is 2294 while ACGT and del only add up to 1092, does anybody have any idea why this is? Thanks!

Total Count is much larger than sum of all base counts

bam igv
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written by WS • WS

1 answer

Check the preferences/options, there is a Downsample setting that results in hiding reads, which may as such also be missing here..

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written by WouterDeCoster WouterDeCoster

I was using the online version. Now switched to APP and I see the option. Yep, the counts are correct now, thanks!

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written by WS • WS

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