Different Chromosome counts between samtools and bambu

[fbndr98]

Description of the bug

Hello,
I hope to get help or maybe better an explanation of the following issue. I have run the nanoseq pipeline using standard settings on a couple of samples in the meantime. I'm interested in the counts per chromosome but by chance I realized, that the counts differ between samtools (.idxstats in the samtools output or the raw index counts of the mutliqc report) and the bambu output counts_gene.txt if gene counts for each chromosome are summed. Not too much, but the numbers do differ. I'm a bit confused why this is the case and would be happy for suggestions which statistic is the more accurate or more reliable.
Thanks!

Command used and terminal output

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Relevant files

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System information

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