I am analysing 16S data using QIIME2. I have successfully reached Phylogenetic tree construction step and obtained rooted and unrooted qza files. The next step involves making core-metrics directory which is giving me an error. Please let me know what changes should I do in my commands? or any other way to resolve this issue?
It seems that your metadata file is causing the error,
Try to put a very simple metadata.tsv file, like id,barcode... see if that works then start adding columns with your data
Also, is very convenient to just copy paste, but try to do it on ONE line.
qiime diversity core-metrics --i-table blabla --i-phylo- blabla
sometimes we forgot to properly add spaces or respect the slashes when we select and edit the parameters , use a text editor then paste on the console
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