Update Silva - Ecogenomics/GTDBNCBI GitHub Wiki

Download files from the Silva website We need the following files:
SILVA_xxx_SSURef_NR99_tax_silva.fasta.
SILVA_xxx_LSURef_tax_silva.fasta.

gtdb_migration_tk update_silva --ssu_ref SILVA_xxx_SSURef_NR99_tax_silva.fasta --lsu_ref SILVA_xxx_LSURef_tax_silva.fasta --output_dir /srv/db/silva/<silva_version>/ -l /path/to/log/directory

Next step is to generate the Blast database:
makeblastdb -in <fasta_file> –dbtype nucl for both files