ihoxie
September 10, 2019, 11:04pm
6
Actually it seems these two links below will answer what I was confused about (how to get a smaller tree with labels that match the taxa names in the abundance file) in case anyone sees this!
Hi, Colin, thank you so much for your input! I checked these docs out. Really helpful!
If I choose to remove the samples of a total abundance less than 10, I did:
qiime feature-table filter-features
–i-table table.qza
–p-min-frequency 10
–o-filtered-table feature-frequency-filtered-table.qza
Then I got a new feature table after this.
I am wondering if there is a way to get the corresponding sequences (a new rep-seqs.qza file) of this new feature table to make the unrooted and rooted tr…
OK, rewrote it now in a more ‘proper’ way… I removed the zip file support mentioned in the previous post.
Trees should be uploaded directly as QZA files, and the uploader will automatically parse any tree.nwk file inside.
After the initial upload, the tree will have the original Qiime internal IDs, but I have now added support for direct drag-dropping of QZA files onto the tree. Other iTOL annotation files are processed client side, but QZAs will be uploaded to the server for processing (so th…
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