Anna Syme

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1/ Get the sequences you want to check. Note that symlinks won’t work if too distant.

2/ Gunzip .gz files

3/ kraken --fastq-input R1.fq > sequences.kraken

4/ This output files is just numbers. To translate to names: kraken-translate sequences.kraken > sequences.labels

5/ Show IDs: less sequences.labels

6/ Get report: kraken-report sequences.kraken > sequences.kraken_report

7/ View report: less sequences.kraken_report