We offer the analysis of whole genome or amplicon sequencing data from metagenomes. The whole shotgun sequencing analysis includes taxonomic and functional profiling using tools like kraken2, humann3 or metaphlan4. The taxonomic profiling of 16S data is mainly based on dada2. In both cases, we use Maaslin2 for statistical analysis. Our 16S pipeline can handle full length 16S PacBio sequencing data as well as a variety of amplicon protocols sequenced on Illumina (e.g. Qiagen 16S/ITS Region Panels).
A zip archive containing the results from an example analysis can be downloaded below. Please refer to the included README and the documentation for more details.