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kevin3/run-kraken-krona.sh

Created July 15, 2021 14:34
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run-kraken-krona.sh
~/bin/kraken2/kraken2 --db ~/k2_standard_16gb_20210517 --use-names --gzip-compressed $1 --output $1.kraken --report $1.kraken.report
cut -f2,3 $1.kraken > $1.kraken.kronainput
ktImportTaxonomy -tax /home/kev/Krona-master/KronaTools/taxonomy $1.kraken.kronainput -o $1.kraken.kronainput.html
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