Comments (1)
Hi @Electrocyte and thanks for the detailed bug report! The 0
taxid is not a valid NCBI taxid (see output from https://www.ncbi.nlm.nih.gov/taxonomy/?term=0) but just a way that Centrifuge has to represent unclassified reads in its output. So, you can't exclude those using Recentrifuge's -x
argument, but you actually don't want to exclude them: Recentrifuge uses that information to calculate the ratio of classified vs unclassified reads and offer that statistics in the results. Hope this helps.
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