However, if I search both variants above in GRCh38, the reversed is presented, where 14-76135756-G-A is now found but not 14-76135756-T-C.
Looking at scripts/import_gnomad.py I just wonder how this script was run and where are the logs. Could be that we imported GRCh38 data rather than GRCh37?
For example, variant
14-76135756-T-C
, which is found at https://gnomad.broadinstitute.org/variant/14-76135756-T-C?dataset=gnomad_r2_1, is missing in tablegnomad.annotation_v3
.Querying for this chrom and position:
but this variant 14-76135756-G-A is not in gnomad (https://gnomad.broadinstitute.org/variant/14-76135756-G-A?dataset=gnomad_r2_1).
All above is related to GRCh37.
However, if I search both variants above in GRCh38, the reversed is presented, where 14-76135756-G-A is now found but not 14-76135756-T-C.
Looking at
scripts/import_gnomad.py
I just wonder how this script was run and where are the logs. Could be that we imported GRCh38 data rather than GRCh37?I suggest having a look here https://gnomad.broadinstitute.org/downloads as well.