Hi,
I was wondering if there is a way to use custom colors like the ones in RColorBrewer in Qiime?
Best
Hi @Parix!
That depends on what visualization you're working with. 
Many visualizations (e.g. taxa barplot) have colorbrewer palettes baked in for you to use.
Other visualizations may offer different approaches. (e.g. emperor plots allow editing in Vega - very powerful, but there's a bit of a learning curve)
Big-picture, it's important to remember that QIIME 2 uses a plugin-based model, where all bioinformatics knowledge is implemented in plugins, rather than in a single, monolithic program. This makes the platform much more flexible, and helps us keep up with the latest and greatest, but also means that different plugins may expose completely different features. Your best bet is probably to poke around with your new visualizations, and ask specific questions here if you can't find what you're looking for.
In a pinch, it's also always possible to qiime tools export your data for visualization with your tool of choice.
Best,
Chris 
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