Closed lbundalian closed 5 months ago
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I cross ref it with the a database online, gnomad3 and gnomad4, the LAST value is the indicator if it is found or not in gnomad4 (all these entries are found in gnomad4)
I think there are around 1.14m of them which are found in gnomad3 but not in 4
Hi, do you refer to WGS or WES? I can see the variant 1-24383908-G-A in WES v4, but not in WGS v4, which is correct given your screenshot reference to the website.
Could you explain again about the issue? I am unsure if I understand you. Thanks.
Hello. I am using WGS v4, basically, I have a list of variants which are annotated based on gnomad v4 (whether they are observed or not in that database), so that is my baseline reference of their existence. I donwloaded the WGS v4 to check which of the previously not observed are now observed, however, when I am checking the results there are variants which are recorded to be previously listed in the database v3 but not in v4
But why do you expect to find 1-24383908-G-A in the WGS v4 sql database? Your reference with the website shows that it is absent in genomes.
Ok. I will check, cause I also have this other database I am looking up for the variants
Hello. I will be closing this and will use your database to align the other database that I have. Thanks a lot
Closed
I donwloaded the latest sqlite3 version from the website but when I cross check from gnomad3 and gnomad4 i still found a few which are missing: