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add species to PFP database #894

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gabridinosauro opened this issue Dec 4, 2024 · 0 comments
Open

add species to PFP database #894

gabridinosauro opened this issue Dec 4, 2024 · 0 comments

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@gabridinosauro
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Hello, I would like to add two species to add to the PFP datanbase.
Similarly how it was discussed in issue #395 , although it was not very easy to understand what was necessary to be done so I wanted to ask again.

I guess once downloaded it from here: https://benlangmead.github.io/aws-indexes/k2 and extracted.
I would have to cancel the two files *.k2d and seqid2taxid.map.

Then run the commands:

kraken2-build --add-to-library genome_1.fasta --db /xdisk/gabri/final_database --threads 48
kraken2-build --add-to-library genome_2.fasta --db /xdisk/gabri/final_database --threads 48

and then build it, is that correct?

kraken2-build --build --db /gabri/final_database --threads 48

Thanks in advance,

Gabri

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