File conversion

[Jasmine84 (Jasmine)]

Hello

I would like to visualize my phylogenetic trees using https://itol.embl.de/ as you do not have a visualization tools for this in QIIME2. But first I have to convert the file to for example a txt file. How do I do this?

Best regards,
Jasmine

[thermokarst]

Hi @Jasmine84! Have you had a chance to review the Exporting Tutorial? That guide will get you up to speed when it comes to getting your data out of QIIME 2. As far as ITOL goes, there was a thread here a few weeks ago that might be relevant to you:

Loading Greengenes tree in iTOL

Hi @Richard_Rodrigues! We can't really provide support for ITOL, since we don't develop it, but, they have pretty nice docs that demonstrate how to prepare you annotation file. Using the Moving Pictures dataset, I prepared a phylogenetic tree, with taxonomic annotations, for viewing in ITOL using the following procedure: Export QIIME 2 Artifacts $ qiime tools export rooted-tree.qza --output-dir . $ qiime tools export taxonomy.qza --output-dir . $ ls rooted-tree.qza taxonomy.qza taxonomy…

Thanks! Let us know if you get stuck or need any assistance!

[iletunic (Ivica Letunic)]

FYI, iTOL now supports QIIME QZA files directly. Check iTOL’s help for details.

Cheers