I'm interested in perfoming an analysis of the fungal community from a set of faecal samples. I have some skills about 16S rDNA amplicon approach for Microbiome analysis, using QIIME2, but I'm completely neofyte in the Mycobiome world. Could anyone explain me how to perform such kind of analysis? I mean, pipelines, bioinformatic tools, etcetera.
My starting point are ITS amplicon reads sequenced in a Miseq platform.
Thanks a lot!