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Mitochondrial genes classified as bacteria #6

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cunhaandre opened this issue Jul 24, 2023 · 1 comment
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Mitochondrial genes classified as bacteria #6

cunhaandre opened this issue Jul 24, 2023 · 1 comment

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@cunhaandre
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Hi! First of all, thank you for the amazing tool.

I am processing some scRNA-seq data and I'm getting a lot of hits for Bacillus thuringiensis. It turns out that these reads align with human mithocondrial genes when I run nt-BLAST. Is there a way to filter out these mitochondrial reads that are being classified as bacteria? Thank you.
@cunhaandre
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Just solved this including the CHM13 genome in kraken2 database. Now a lot of false positives are assigned to human.

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@cunhaandre