Supported databases¶
16S rRNA¶
- Greengenes ftp://greengenes.microbio.me/greengenes_release/
- Greengenes Core Set (useful for NAST) http://greengenes.lbl.gov/Download/Sequence_Data/Fasta_data_files/core_set_aligned.fasta.imputed
- QIIME-formatted SILVA https://www.arb-silva.de/download/archive/qiime/
ITS¶
UNITE https://unite.ut.ee/repository.php (QIIME releases)
Note
In the QIIME releases of the UNITE database the
_s
in the filename (e.g.sh_qiime_release_s_DD.MM.YYY.zip
) specifies that the database includes singletons.