Note: the number of downloadable GTDB complete genomes mismatched with that in official website due to some records are deleted in NCBI

GTDB
1

Yesterday I tried to download all GTDB genomes with genome_updater, but only 402,538 out of 402,709 were downloaded. Because some of them are deleted in NCBI.

Here’s the full list: missing.txt
more details

2

Hi,

NCBI generally (never?) deletes data, but data records can become suppressed. For example,
GCA_024650005.1 has been suppressed, but you can still find information about this record and how to download the data at:

Cheers,
Donovan

3

Thanks for the information.