I have used Q2 a lot lately and I want to use some features of Phyloseq illustration in R now but I have very often a problem with the code names used by Q2 that looks like “2ec862esddlr88965a8855d665er2245” which is not helping for the analysis.
I am wondering whether during my exportation of Q2 object to Phyloseq object I can do something about it so I won’t get these ugly name ;-)!
This codes for instance:
clean_physeq2essai_phylum = phyloseq::tax_glom(clean_physeq2essai, "Phylum") phyloseq::psmelt(clean_physeq2essai_phylum) %>% ggplot(data = ., aes(x = Group_Timepoint, y = Abundance)) + geom_boxplot(outlier.shape = NA) + geom_jitter(aes(color = OTU), height = 0, width = .2) + labs(x = "", y = "Abundance\n") + facet_wrap(~ OTU, scales = "free")
Gives my that