Update to "Comprehensive end-to-end microbiome analysis using QIIME 2"

Ideas and Suggestions
1

I have been trying to follow the tutorial in the article ‘Comprehensive end-to-end microbiome analysis using QIIME 2’ and have been getting along fine until the point where one is asked to create a taxonomic classifier At this point one is asked to download 3 files using a URL or wget or curl. Unfortunatlet, it appears that one of the three files has had a slight name change from ‘ref-seqs-v4.qza’ to ‘ref-seqs.qza’. The only way to get this file is to visit github (see URL below) and download it.

Obviously, wheh using the subsequent classifier command, the file name need to be changed appropriately:

qiime feature-classifier fit-classifier-naive-bayes
–i-reference-reads ref-seqs.qza
–i-reference-taxonomy ref-tax.qza
–i-class-weight human-stool.qza
–o-classifier gg138_v4_human-stool_classifier.qza

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2

Thanks for letting us know @markwinfield! Those files were updated yesterday to make the filenames consistent for all databases in that repository, and we had not gotten around to updating the tutorial yet.

We will fix the names in the tutorial ASAP and your post here will be very useful to guide others who run into that same issue. Thanks!

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