-
Notifications
You must be signed in to change notification settings - Fork 0
ClinVar data
Damianos P. Melidis edited this page Nov 22, 2021
·
2 revisions
-
Navigate to ClinVar downloads for GRCh37
-
Then, make your current directory the
genotoscope_data/ClinVar
:cd /path2genotoscope_data/genotoscope_data/ClinVar
-
There create a subfolder, with a descriptive name for the current version, for example clinvar_mar_2021:
mkdir clinvar_mar_2021
-
Download the compressed vcf and the index files:
wget https://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh37/clinvar_20211120.vcf.gz
wget https://ftp.ncbi.nlm.nih.gov/pub/clinvar/vcf_GRCh37/clinvar_20211120.vcf.gz.tbi
If review status stars system is updated:
- Navigate to the ClinVar review status description page
- Copy and paste the table 1 of the previous page to a .tsv file, to resemble the format of
genotoscope_data/ClinVar/clinvar_review_stars.tsv
- Replace the current file,
genotoscope_data/ClinVar/clinvar_review_stars.tsv
, with the new one