{"action":"opened","issue":{"url":"https://api.github.com/repos/mskcc/vcf2maf/issues/208","repository_url":"https://api.github.com/repos/mskcc/vcf2maf","labels_url":"https://api.github.com/repos/mskcc/vcf2maf/issues/208/labels{/name}","comments_url":"https://api.github.com/repos/mskcc/vcf2maf/issues/208/comments","events_url":"https://api.github.com/repos/mskcc/vcf2maf/issues/208/events","html_url":"https://github.com/mskcc/vcf2maf/issues/208","id":394176920,"node_id":"MDU6SXNzdWUzOTQxNzY5MjA=","number":208,"title":"New VEP does not handle Delly SV VCFs","user":{"login":"ckandoth","id":516941,"node_id":"MDQ6VXNlcjUxNjk0MQ==","avatar_url":"https://avatars2.githubusercontent.com/u/516941?v=4","gravatar_id":"","url":"https://api.github.com/users/ckandoth","html_url":"https://github.com/ckandoth","followers_url":"https://api.github.com/users/ckandoth/followers","following_url":"https://api.github.com/users/ckandoth/following{/other_user}","gists_url":"https://api.github.com/users/ckandoth/gists{/gist_id}","starred_url":"https://api.github.com/users/ckandoth/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ckandoth/subscriptions","organizations_url":"https://api.github.com/users/ckandoth/orgs","repos_url":"https://api.github.com/users/ckandoth/repos","events_url":"https://api.github.com/users/ckandoth/events{/privacy}","received_events_url":"https://api.github.com/users/ckandoth/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":0,"created_at":"2018-12-26T14:18:37Z","updated_at":"2018-12-26T14:18:37Z","closed_at":null,"author_association":"MEMBER","body":"The older VEP v86 and v88 seem to work fine with vcf2maf v1.6.15 and generate a proper MAF for the SVs. But VEP v92 with vcf2maf 1.6.16 produces an empty MAF. Most likely because the newer VEP handles `ALT=<SV_TYPE>` format differently."}}
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