Hello everyone,
I’m currently using Kraken2 for taxonomy assignment of shotgun metagenomic sequences within QIIME2. However, I’ve encountered strange results when comparing Kraken’s assignments to those obtained from NCBI BLAST.
I’m using databases that of BOLD (Barcode of Life Database) and Nemabiome. The problem maybe appear to stem from the fact that these databases use different accession number formats and taxonomic ID systems compared to the standard NCBI format.
This is just guessing from the anwer of GPT Could this discrepancy in accession numbers and taxon IDs be causing incorrect taxonomy assignments in Kraken 2? If so, what would be the best way to resolve this issue and ensure accurate taxonomy assignment in QIIME2 using my custom database?
Or other cause of the problem ? Any advice or recommendations on how to properly format my custom database for Kraken 2 in QIIME2 would be greatly appreciated!
