The CSV download is exactly as produced by the bioinformatics pipeline that we use.
The results in Biomesight have some slight differences:
- The CSV file contains a record with Kingdom=Viruses. These are added by the lab to process the sample and the FASTQ process should be removing these automatically but some of still remains and as such as quantified in the result set. However, this is not a part of the analysis that should be considered as part of the result set and therefore we do not load this into Biomesight. It should also be ignored in the CSV result.
- We have a number of single species Genus:
- Bilophila
- Akkermansia
- Faecalibacterium
The unidentified species under these genera caused a lot of confusion and considering there’s only 1 known species under these genera, we updated on the web UI to report the full genus level at the species level.