SEQanswers - Bioinformatics https://www.seqanswers.com/ Discussion of next-gen sequencing related bioinformatics: resources, algorithms, open source efforts, etc en Sat, 27 Jun 2026 00:42:15 GMT vBulletin 60 https://www.seqanswers.com/images/misc/rss.png SEQanswers - Bioinformatics https://www.seqanswers.com/ kracken2/bracken output file integrity check https://www.seqanswers.com/forum/bioinformatics/bioinformatics-aa/327355-kracken2-bracken-output-file-integrity-check Wed, 03 Jun 2026 13:17:45 GMT Hi everyone, I just ran Kraken2 and Bracken on a large metagenomics dataset on a SLURM cluster, and since some jobs might have suffered from...
I just ran Kraken2 and Bracken on a large metagenomics dataset on a SLURM cluster, and since some jobs might have suffered from silent memory crashes or timeouts, I'd like to make sure none of the output files were truncated or corrupted due to memory issues, timeouts, or failed jobs.

Are there any recommended tools or workflows for checking the integrity and completeness of Kraken2/Bracken reports ?

Thanks for your help!
]]> Bioinformatics Sunflower34 https://www.seqanswers.com/forum/bioinformatics/bioinformatics-aa/327355-kracken2-bracken-output-file-integrity-check