{"action":"closed","issue":{"url":"https://api.github.com/repos/smithlabcode/methpipe/issues/74","labels_url":"https://api.github.com/repos/smithlabcode/methpipe/issues/74/labels{/name}","comments_url":"https://api.github.com/repos/smithlabcode/methpipe/issues/74/comments","events_url":"https://api.github.com/repos/smithlabcode/methpipe/issues/74/events","html_url":"https://github.com/smithlabcode/methpipe/issues/74","id":99049309,"number":74,"title":"Reporting \"effective genome size\" in the output of HMR program","user":{"login":"andrewdavidsmith","id":7356801,"avatar_url":"https://avatars.githubusercontent.com/u/7356801?v=3","gravatar_id":"","url":"https://api.github.com/users/andrewdavidsmith","html_url":"https://github.com/andrewdavidsmith","followers_url":"https://api.github.com/users/andrewdavidsmith/followers","following_url":"https://api.github.com/users/andrewdavidsmith/following{/other_user}","gists_url":"https://api.github.com/users/andrewdavidsmith/gists{/gist_id}","starred_url":"https://api.github.com/users/andrewdavidsmith/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/andrewdavidsmith/subscriptions","organizations_url":"https://api.github.com/users/andrewdavidsmith/orgs","repos_url":"https://api.github.com/users/andrewdavidsmith/repos","events_url":"https://api.github.com/users/andrewdavidsmith/events{/privacy}","received_events_url":"https://api.github.com/users/andrewdavidsmith/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":{"login":"bdecato","id":7364304,"avatar_url":"https://avatars.githubusercontent.com/u/7364304?v=3","gravatar_id":"","url":"https://api.github.com/users/bdecato","html_url":"https://github.com/bdecato","followers_url":"https://api.github.com/users/bdecato/followers","following_url":"https://api.github.com/users/bdecato/following{/other_user}","gists_url":"https://api.github.com/users/bdecato/gists{/gist_id}","starred_url":"https://api.github.com/users/bdecato/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/bdecato/subscriptions","organizations_url":"https://api.github.com/users/bdecato/orgs","repos_url":"https://api.github.com/users/bdecato/repos","events_url":"https://api.github.com/users/bdecato/events{/privacy}","received_events_url":"https://api.github.com/users/bdecato/received_events","type":"User","site_admin":false},"milestone":null,"comments":4,"created_at":"2015-08-04T19:59:48Z","updated_at":"2015-10-27T23:53:07Z","closed_at":"2015-10-27T23:53:07Z","body":"The HMR program should report the size of the genome that is contained in \"non-desert\" regions of the genome. A related issue is whether to eliminate non-desert intervals that are too small. The cutoff of 1 CpG being \"too small\" is sensible, as we would never want to call an isolated CpG site as an HMR (at least the way we currently understand the HMRs as intervals). This second issue arises when we try to compute the size of the non-desert genome, as single-CpG sites might be treated as having size 0 if we measure interval size as the difference between the start of the last CpG site and the start of the first one.\r\n"}}