{"action":"created","issue":{"url":"https://api.github.com/repos/merenlab/anvio/issues/508","repository_url":"https://api.github.com/repos/merenlab/anvio","labels_url":"https://api.github.com/repos/merenlab/anvio/issues/508/labels{/name}","comments_url":"https://api.github.com/repos/merenlab/anvio/issues/508/comments","events_url":"https://api.github.com/repos/merenlab/anvio/issues/508/events","html_url":"https://github.com/merenlab/anvio/issues/508","id":225335528,"number":508,"title":"anvi-gen-variability-profile should have gene_length column","user":{"login":"ekiefl","id":8688665,"avatar_url":"https://avatars0.githubusercontent.com/u/8688665?v=3","gravatar_id":"","url":"https://api.github.com/users/ekiefl","html_url":"https://github.com/ekiefl","followers_url":"https://api.github.com/users/ekiefl/followers","following_url":"https://api.github.com/users/ekiefl/following{/other_user}","gists_url":"https://api.github.com/users/ekiefl/gists{/gist_id}","starred_url":"https://api.github.com/users/ekiefl/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ekiefl/subscriptions","organizations_url":"https://api.github.com/users/ekiefl/orgs","repos_url":"https://api.github.com/users/ekiefl/repos","events_url":"https://api.github.com/users/ekiefl/events{/privacy}","received_events_url":"https://api.github.com/users/ekiefl/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"assignees":[],"milestone":null,"comments":6,"created_at":"2017-04-30T15:54:26Z","updated_at":"2017-05-01T16:27:50Z","closed_at":"2017-04-30T21:01:36Z","body":"Currently, there is some gene information provided in the text file output of anvi-gen-variability-profile (corresponding_gene_call, in_partial_gene_call, in_complete_gene_call, base_pos_in_codon, and codon_order_in_gene). It would be convenient to have a gene_length column for calculating SNV density metrics. Currently, the workaround is doing some data wrangling on the <your_collection>-gene_calls.txt file output from anvi-summarize. If the SNV isn't annotated by a partial or complete gene annotation, the gene_length element should be -1 or 0."},"comment":{"url":"https://api.github.com/repos/merenlab/anvio/issues/comments/298367307","html_url":"https://github.com/merenlab/anvio/issues/508#issuecomment-298367307","issue_url":"https://api.github.com/repos/merenlab/anvio/issues/508","id":298367307,"user":{"login":"meren","id":197307,"avatar_url":"https://avatars1.githubusercontent.com/u/197307?v=3","gravatar_id":"","url":"https://api.github.com/users/meren","html_url":"https://github.com/meren","followers_url":"https://api.github.com/users/meren/followers","following_url":"https://api.github.com/users/meren/following{/other_user}","gists_url":"https://api.github.com/users/meren/gists{/gist_id}","starred_url":"https://api.github.com/users/meren/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/meren/subscriptions","organizations_url":"https://api.github.com/users/meren/orgs","repos_url":"https://api.github.com/users/meren/repos","events_url":"https://api.github.com/users/meren/events{/privacy}","received_events_url":"https://api.github.com/users/meren/received_events","type":"User","site_admin":false},"created_at":"2017-05-01T16:27:50Z","updated_at":"2017-05-01T16:27:50Z","body":"Perfect! Thank you for looking into that."}}
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