{"action":"created","issue":{"url":"https://api.github.com/repos/hammerlab/cycledash/issues/645","labels_url":"https://api.github.com/repos/hammerlab/cycledash/issues/645/labels{/name}","comments_url":"https://api.github.com/repos/hammerlab/cycledash/issues/645/comments","events_url":"https://api.github.com/repos/hammerlab/cycledash/issues/645/events","html_url":"https://github.com/hammerlab/cycledash/issues/645","id":82480140,"number":645,"title":"Explore different karyogram orientations","user":{"login":"ryan-williams","id":465045,"avatar_url":"https://avatars.githubusercontent.com/u/465045?v=3","gravatar_id":"","url":"https://api.github.com/users/ryan-williams","html_url":"https://github.com/ryan-williams","followers_url":"https://api.github.com/users/ryan-williams/followers","following_url":"https://api.github.com/users/ryan-williams/following{/other_user}","gists_url":"https://api.github.com/users/ryan-williams/gists{/gist_id}","starred_url":"https://api.github.com/users/ryan-williams/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ryan-williams/subscriptions","organizations_url":"https://api.github.com/users/ryan-williams/orgs","repos_url":"https://api.github.com/users/ryan-williams/repos","events_url":"https://api.github.com/users/ryan-williams/events{/privacy}","received_events_url":"https://api.github.com/users/ryan-williams/received_events","type":"User","site_admin":false},"labels":[],"state":"open","locked":false,"assignee":null,"milestone":null,"comments":1,"created_at":"2015-05-29T15:47:59Z","updated_at":"2015-05-29T15:57:43Z","closed_at":null,"body":"There are 2 independent axes here: **intra**-contig orientation, and **inter**-contig orientation; each can be horizontal or vertical:\r\n\r\n![](https://s3.amazonaws.com/f.cl.ly/items/2Q303R0o2A1919333T04/Screen%20Shot%202015-05-29%20at%2011.37.44%20AM.png)\r\n\r\n[source ^^](https://docs.google.com/presentation/d/1UQfADEPQE7oWdvhdNYnRZUVJxYVD4hUoXbEof2XhY4k/edit#slide=id.p)\r\n\r\nhoriz/horiz and vert/vert share several issues:\r\n* super wide (resp. tall), skinny shape necessitates very-zoomed-out view, makes it very hard to interact with the karyogram / see any detail in the multi-contig view\r\n* propagates the illusion that e.g. the end of chromosome 1 has anything to do with the start of chromosome 2.\r\n\r\n[Google image search for karyogram](https://www.google.com/search?q=karyogram&es_sm=91&source=lnms&tbm=isch&sa=X&ei=-IhoVdD3AdatyASb7oGwCA&ved=0CAcQ_AUoAQ&biw=1396&bih=1219) shows no examples of horiz/horiz or vert/vert, for good reason imho:\r\n\r\n![](https://s3.amazonaws.com/f.cl.ly/items/231L0m3s1L0B1a3k3c32/Screen%20Shot%202015-05-29%20at%2011.46.27%20AM.png)\r\n\r\nIf we bring back the karyogram (and I would like to / believe we can find a way that makes sense, once we figure out exactly what purpose it would serve), we should think about the 2x2 matrix of possible orientations.\r\n"},"comment":{"url":"https://api.github.com/repos/hammerlab/cycledash/issues/comments/106855915","html_url":"https://github.com/hammerlab/cycledash/issues/645#issuecomment-106855915","issue_url":"https://api.github.com/repos/hammerlab/cycledash/issues/645","id":106855915,"user":{"login":"ihodes","id":167803,"avatar_url":"https://avatars.githubusercontent.com/u/167803?v=3","gravatar_id":"","url":"https://api.github.com/users/ihodes","html_url":"https://github.com/ihodes","followers_url":"https://api.github.com/users/ihodes/followers","following_url":"https://api.github.com/users/ihodes/following{/other_user}","gists_url":"https://api.github.com/users/ihodes/gists{/gist_id}","starred_url":"https://api.github.com/users/ihodes/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/ihodes/subscriptions","organizations_url":"https://api.github.com/users/ihodes/orgs","repos_url":"https://api.github.com/users/ihodes/repos","events_url":"https://api.github.com/users/ihodes/events{/privacy}","received_events_url":"https://api.github.com/users/ihodes/received_events","type":"User","site_admin":false},"created_at":"2015-05-29T15:57:43Z","updated_at":"2015-05-29T15:57:43Z","body":"cf. https://github.com/hammerlab/cycledash/issues/245#issuecomment-106850297"}}