Remove certain species from standard database of Kraken
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18 months ago
snishtala03 ▴ 70

Hello,

I am using the standard database from Kraken2 to classify my reads and then Bracken to estimate abundances. I want to narrow down on only a small list of Lactobacillus species and all other species from other genus. (i.e lets say there are 100 Lactobacillus species, I was to keep only 5 of them in the database and remove the rest). Is there a way I can do that?

Thanks!

RNA-Seq 16s kraken bracken metagenomics • 450 views
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