{"action":"closed","issue":{"url":"https://api.github.com/repos/glennhickey/hal/issues/33","labels_url":"https://api.github.com/repos/glennhickey/hal/issues/33/labels{/name}","comments_url":"https://api.github.com/repos/glennhickey/hal/issues/33/comments","events_url":"https://api.github.com/repos/glennhickey/hal/issues/33/events","html_url":"https://github.com/glennhickey/hal/issues/33","id":111996670,"number":33,"title":"rearrangements between two branches?","user":{"login":"mahulchak","id":7537640,"avatar_url":"https://avatars.githubusercontent.com/u/7537640?v=3","gravatar_id":"","url":"https://api.github.com/users/mahulchak","html_url":"https://github.com/mahulchak","followers_url":"https://api.github.com/users/mahulchak/followers","following_url":"https://api.github.com/users/mahulchak/following{/other_user}","gists_url":"https://api.github.com/users/mahulchak/gists{/gist_id}","starred_url":"https://api.github.com/users/mahulchak/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/mahulchak/subscriptions","organizations_url":"https://api.github.com/users/mahulchak/orgs","repos_url":"https://api.github.com/users/mahulchak/repos","events_url":"https://api.github.com/users/mahulchak/events{/privacy}","received_events_url":"https://api.github.com/users/mahulchak/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":4,"created_at":"2015-10-18T02:29:14Z","updated_at":"2015-12-03T08:15:03Z","closed_at":"2015-12-03T08:15:03Z","body":"Hello,\r\nI am using halBranchMutations to obtain a list of mutations (SVs and SNPs) between different genomes provided in the example. The current documentation on the command says \"To generate tables of rearrangement mutations between human and its most recent ancestor in the alignment, run\"... \r\n\r\nI am slightly confused here. what if I am trying to obtain a list of rearrangements between human and chimp? How would I specify that I am trying to obtain the mutations between human and chimp and not human and gorilla?\r\n\r\nThank you.\r\nMahul"}}