{"action":"created","issue":{"url":"https://api.github.com/repos/grunwaldlab/poppr/issues/89","repository_url":"https://api.github.com/repos/grunwaldlab/poppr","labels_url":"https://api.github.com/repos/grunwaldlab/poppr/issues/89/labels{/name}","comments_url":"https://api.github.com/repos/grunwaldlab/poppr/issues/89/comments","events_url":"https://api.github.com/repos/grunwaldlab/poppr/issues/89/events","html_url":"https://github.com/grunwaldlab/poppr/issues/89","id":139068517,"number":89,"title":"Pre-release for poppr version 2.1.1","user":{"login":"zkamvar","id":3639446,"avatar_url":"https://avatars.githubusercontent.com/u/3639446?v=3","gravatar_id":"","url":"https://api.github.com/users/zkamvar","html_url":"https://github.com/zkamvar","followers_url":"https://api.github.com/users/zkamvar/followers","following_url":"https://api.github.com/users/zkamvar/following{/other_user}","gists_url":"https://api.github.com/users/zkamvar/gists{/gist_id}","starred_url":"https://api.github.com/users/zkamvar/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/zkamvar/subscriptions","organizations_url":"https://api.github.com/users/zkamvar/orgs","repos_url":"https://api.github.com/users/zkamvar/repos","events_url":"https://api.github.com/users/zkamvar/events{/privacy}","received_events_url":"https://api.github.com/users/zkamvar/received_events","type":"User","site_admin":false},"labels":[],"state":"closed","locked":false,"assignee":null,"milestone":null,"comments":2,"created_at":"2016-03-07T19:23:41Z","updated_at":"2016-03-15T19:51:36Z","closed_at":"2016-03-15T19:51:36Z","body":"The following is a draft list of changes that will be included in poppr version 2.1.1\r\n\r\nNotable changes:\r\n\r\n - custom correction methods for missing rare allele frequencies from the round-robin allele frequency function, `rraf()`.\r\n - documentation improvements highlighting which functions can be used on genlight objects.\r\n\r\nThis version can be installed and tested with:\r\n\r\n```r\r\ndevtools::install_github(\"grunwaldlab/poppr\", build_vignettes = TRUE)\r\n```\r\n\r\nI will close this issue once it has been accepted to CRAN. Below is the full set of changes.\r\n\r\npoppr 2.1.1\r\n===========\r\n\r\nNEW FEATURES\r\n-----------\r\n\r\n* `imsn()` now has collapsible side panels\r\n* `nmll()` and `mll()` will now handle genind and genlight objects\r\n* `rraf()` now gives options for minor allele correction encompassed in the \r\n  internal function `rare_allele_correction()`. This extends also to `pgen()` \r\n  and `psex()`, which must correct minor allele frequencies by default. See \r\n    https://github.com/grunwaldlab/poppr/issues/81 for details.\r\n\r\nMISC\r\n-----------\r\n\r\n* `mlg.filter()` now defaults to using `diss.dist()`\r\n* default threshold for `filter_stats()` is now 1e+6\r\n* `mlg.filter()` now returns a list instead of a pairlist\r\n* the \"hist\" argument for `poppr()` is now deprecated in favor of \"plot\"\r\n* documentation improvements\r\n* the show method for snpclone objects now looks distinct from genlight\r\n* genlight objects no longer get passed to `missingno()` in `filter_stats()`\r\n* `filter_stats()` now returns invisibly when plot = TRUE; see \r\n  https://github.com/grunwaldlab/poppr/issues/87 for details.\r\n\r\nBUG FIX\r\n------------\r\n\r\n* When supplied an object with no strata, `clonecorrect()` will default to\r\n  `strata = NA`.\r\n* `read.genalex()` will no longer fail if missing data is not coded as zero\r\n"},"comment":{"url":"https://api.github.com/repos/grunwaldlab/poppr/issues/comments/196994706","html_url":"https://github.com/grunwaldlab/poppr/issues/89#issuecomment-196994706","issue_url":"https://api.github.com/repos/grunwaldlab/poppr/issues/89","id":196994706,"user":{"login":"zkamvar","id":3639446,"avatar_url":"https://avatars.githubusercontent.com/u/3639446?v=3","gravatar_id":"","url":"https://api.github.com/users/zkamvar","html_url":"https://github.com/zkamvar","followers_url":"https://api.github.com/users/zkamvar/followers","following_url":"https://api.github.com/users/zkamvar/following{/other_user}","gists_url":"https://api.github.com/users/zkamvar/gists{/gist_id}","starred_url":"https://api.github.com/users/zkamvar/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/zkamvar/subscriptions","organizations_url":"https://api.github.com/users/zkamvar/orgs","repos_url":"https://api.github.com/users/zkamvar/repos","events_url":"https://api.github.com/users/zkamvar/events{/privacy}","received_events_url":"https://api.github.com/users/zkamvar/received_events","type":"User","site_admin":false},"created_at":"2016-03-15T19:51:36Z","updated_at":"2016-03-15T19:51:36Z","body":"Thanks, on CRAN now.\r\n\r\nBest\r\n-k"}}