First of all thank you for creating this tool.
I would like to analyze Shotgun metagenomic data (paired end sequencing), starting from already trimmed and decontaminated reads. What is the best way for you to create a gene abundance table and/or a BIOM file to “feed” the SDP module?
It will then be possible for me to calculate the alpha and beta diversity and the differential abundance also at taxa level?
I have to compare four groups: is it possible to perform a TWO WAY ANOVA or an ANCOVA ?
Thanks a lot.
Have a nice day,